-- dump date 20140619_114344 -- class Genbank::misc_feature -- table misc_feature_note -- id note 907239000001 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 907239000002 putative RNA binding site [nucleotide binding]; other site 907239000003 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 907239000004 homopentamer interface [polypeptide binding]; other site 907239000005 active site 907239000006 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 907239000007 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 907239000008 active site clefts [active] 907239000009 zinc binding site [ion binding]; other site 907239000010 dimer interface [polypeptide binding]; other site 907239000011 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 907239000012 active site 907239000013 dimer interface [polypeptide binding]; other site 907239000014 pantoate--beta-alanine ligase; Region: panC; TIGR00018 907239000015 Pantoate-beta-alanine ligase; Region: PanC; cd00560 907239000016 active site 907239000017 ATP-binding site [chemical binding]; other site 907239000018 pantoate-binding site; other site 907239000019 HXXH motif; other site 907239000020 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239000021 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 907239000022 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 907239000023 ring oligomerisation interface [polypeptide binding]; other site 907239000024 ATP/Mg binding site [chemical binding]; other site 907239000025 stacking interactions; other site 907239000026 hinge regions; other site 907239000027 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 907239000028 oligomerisation interface [polypeptide binding]; other site 907239000029 mobile loop; other site 907239000030 roof hairpin; other site 907239000031 DNA primase; Validated; Region: dnaG; PRK05667 907239000032 CHC2 zinc finger; Region: zf-CHC2; pfam01807 907239000033 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 907239000034 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 907239000035 active site 907239000036 metal binding site [ion binding]; metal-binding site 907239000037 interdomain interaction site; other site 907239000038 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 907239000039 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 907239000040 Ligand Binding Site [chemical binding]; other site 907239000041 TrbC/VIRB2 family; Region: TrbC; cl01583 907239000042 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 907239000043 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 907239000044 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 907239000045 Walker A motif; other site 907239000046 ATP binding site [chemical binding]; other site 907239000047 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 907239000048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 907239000049 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 907239000050 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 907239000051 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 907239000052 active site 907239000053 phosphorylation site [posttranslational modification] 907239000054 intermolecular recognition site; other site 907239000055 dimerization interface [polypeptide binding]; other site 907239000056 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 907239000057 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 907239000058 dimer interface [polypeptide binding]; other site 907239000059 active site 907239000060 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 907239000061 catalytic residues [active] 907239000062 substrate binding site [chemical binding]; other site 907239000063 lipid A 1-phosphatase; Reviewed; Region: PRK09597 907239000064 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 907239000065 active site 907239000066 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 907239000067 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 907239000068 Sulfatase; Region: Sulfatase; pfam00884 907239000069 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239000070 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 907239000071 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 907239000072 dimer interface [polypeptide binding]; other site 907239000073 active site 907239000074 citrylCoA binding site [chemical binding]; other site 907239000075 NADH binding [chemical binding]; other site 907239000076 cationic pore residues; other site 907239000077 oxalacetate/citrate binding site [chemical binding]; other site 907239000078 coenzyme A binding site [chemical binding]; other site 907239000079 catalytic triad [active] 907239000080 isocitrate dehydrogenase; Validated; Region: PRK07362 907239000081 isocitrate dehydrogenase; Reviewed; Region: PRK07006 907239000082 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 907239000083 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 907239000084 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 907239000085 Ligand Binding Site [chemical binding]; other site 907239000086 Uncharacterized conserved protein [Function unknown]; Region: COG2127 907239000087 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 907239000088 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 907239000089 Walker A motif; other site 907239000090 ATP binding site [chemical binding]; other site 907239000091 Walker B motif; other site 907239000092 arginine finger; other site 907239000093 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 907239000094 Walker A motif; other site 907239000095 ATP binding site [chemical binding]; other site 907239000096 Walker B motif; other site 907239000097 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 907239000098 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 907239000099 tetramerization interface [polypeptide binding]; other site 907239000100 active site 907239000101 hypothetical protein; Provisional; Region: PRK03762 907239000102 PDZ domain; Region: PDZ_2; pfam13180 907239000103 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 907239000104 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 907239000105 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 907239000106 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 907239000107 VirB7 interaction site; other site 907239000108 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 907239000109 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 907239000110 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 907239000111 Substrate binding site; other site 907239000112 Cupin domain; Region: Cupin_2; cl17218 907239000113 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 907239000114 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 907239000115 NADP-binding site; other site 907239000116 homotetramer interface [polypeptide binding]; other site 907239000117 substrate binding site [chemical binding]; other site 907239000118 homodimer interface [polypeptide binding]; other site 907239000119 active site 907239000120 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 907239000121 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 907239000122 NADP binding site [chemical binding]; other site 907239000123 active site 907239000124 putative substrate binding site [chemical binding]; other site 907239000125 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 907239000126 dimerization interface [polypeptide binding]; other site 907239000127 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 907239000128 ATP binding site [chemical binding]; other site 907239000129 Acylphosphatase; Region: Acylphosphatase; pfam00708 907239000130 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 907239000131 HypF finger; Region: zf-HYPF; pfam07503 907239000132 HypF finger; Region: zf-HYPF; pfam07503 907239000133 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 907239000134 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957 907239000135 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 907239000136 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 907239000137 DNA methylase; Region: N6_N4_Mtase; pfam01555 907239000138 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 907239000139 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 907239000140 cofactor binding site; other site 907239000141 DNA binding site [nucleotide binding] 907239000142 substrate interaction site [chemical binding]; other site 907239000143 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 907239000144 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 907239000145 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 907239000146 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 907239000147 Na binding site [ion binding]; other site 907239000148 Proline dehydrogenase; Region: Pro_dh; pfam01619 907239000149 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 907239000150 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 907239000151 Glutamate binding site [chemical binding]; other site 907239000152 NAD binding site [chemical binding]; other site 907239000153 catalytic residues [active] 907239000154 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 907239000155 A nuclease of the HNH/ENDO VII superfamily with conserved WHH; Region: WHH; pfam14414 907239000156 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 907239000157 potential frameshift: common BLAST hit: gi|108562492|ref|YP_626808.1| ATP-binding protein 907239000158 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 907239000159 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 907239000160 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 907239000161 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 907239000162 G1 box; other site 907239000163 GTP/Mg2+ binding site [chemical binding]; other site 907239000164 G2 box; other site 907239000165 Switch I region; other site 907239000166 G3 box; other site 907239000167 Switch II region; other site 907239000168 G4 box; other site 907239000169 G5 box; other site 907239000170 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 907239000171 UreF; Region: UreF; pfam01730 907239000172 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 907239000173 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 907239000174 dimer interface [polypeptide binding]; other site 907239000175 catalytic residues [active] 907239000176 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 907239000177 urease subunit beta; Provisional; Region: ureB; PRK13985 907239000178 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 907239000179 subunit interactions [polypeptide binding]; other site 907239000180 active site 907239000181 flap region; other site 907239000182 urease subunit alpha; Provisional; Region: PRK13986 907239000183 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 907239000184 alpha-gamma subunit interface [polypeptide binding]; other site 907239000185 beta-gamma subunit interface [polypeptide binding]; other site 907239000186 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 907239000187 gamma-beta subunit interface [polypeptide binding]; other site 907239000188 alpha-beta subunit interface [polypeptide binding]; other site 907239000189 potential protein location (hypothetical protein HPSA_00380 [Helicobacter pylori SouthAfrica7]) that overlaps RNA (tRNA-V) 907239000190 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 907239000191 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 907239000192 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 907239000193 active site 907239000194 substrate binding site [chemical binding]; other site 907239000195 metal binding site [ion binding]; metal-binding site 907239000196 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 907239000197 peptide chain release factor 1; Validated; Region: prfA; PRK00591 907239000198 This domain is found in peptide chain release factors; Region: PCRF; smart00937 907239000199 RF-1 domain; Region: RF-1; pfam00472 907239000200 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 907239000201 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239000202 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 907239000203 dimer interface [polypeptide binding]; other site 907239000204 putative CheW interface [polypeptide binding]; other site 907239000205 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 907239000206 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 907239000207 23S rRNA interface [nucleotide binding]; other site 907239000208 L3 interface [polypeptide binding]; other site 907239000209 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 907239000210 Predicted dehydrogenase [General function prediction only]; Region: COG0579 907239000211 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 907239000212 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 907239000213 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 907239000214 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 907239000215 NlpC/P60 family; Region: NLPC_P60; cl17555 907239000216 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 907239000217 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 907239000218 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 907239000219 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 907239000220 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 907239000221 DNA binding residues [nucleotide binding] 907239000222 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 907239000223 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 907239000224 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 907239000225 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 907239000226 potential protein location (hypothetical protein HPSA_00470 [Helicobacter pylori SouthAfrica7]) that overlaps RNA (tRNA-S) 907239000227 DpnII restriction endonuclease; Region: DpnII; pfam04556 907239000228 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 907239000229 Methyltransferase domain; Region: Methyltransf_26; pfam13659 907239000230 DNA methylase; Region: N6_N4_Mtase; pfam01555 907239000231 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 907239000232 GDP-Fucose binding site [chemical binding]; other site 907239000233 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 907239000234 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 907239000235 putative ligand binding site [chemical binding]; other site 907239000236 putative NAD binding site [chemical binding]; other site 907239000237 catalytic site [active] 907239000238 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 907239000239 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 907239000240 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907239000241 catalytic residue [active] 907239000242 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 907239000243 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 907239000244 dimer interface [polypeptide binding]; other site 907239000245 putative CheW interface [polypeptide binding]; other site 907239000246 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 907239000247 Ligand Binding Site [chemical binding]; other site 907239000248 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239000249 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 907239000250 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 907239000251 metal-binding site 907239000252 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 907239000253 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 907239000254 dimerization interface [polypeptide binding]; other site 907239000255 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 907239000256 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 907239000257 dimer interface [polypeptide binding]; other site 907239000258 putative CheW interface [polypeptide binding]; other site 907239000259 S-ribosylhomocysteinase; Provisional; Region: PRK02260 907239000260 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 907239000261 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 907239000262 homodimer interface [polypeptide binding]; other site 907239000263 substrate-cofactor binding pocket; other site 907239000264 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907239000265 catalytic residue [active] 907239000266 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 907239000267 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 907239000268 dimer interface [polypeptide binding]; other site 907239000269 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907239000270 catalytic residue [active] 907239000271 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 907239000272 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 907239000273 nucleotide binding site [chemical binding]; other site 907239000274 NEF interaction site [polypeptide binding]; other site 907239000275 SBD interface [polypeptide binding]; other site 907239000276 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 907239000277 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 907239000278 dimer interface [polypeptide binding]; other site 907239000279 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 907239000280 heat-inducible transcription repressor; Provisional; Region: PRK03911 907239000281 hypothetical protein; Provisional; Region: PRK05834 907239000282 intersubunit interface [polypeptide binding]; other site 907239000283 active site 907239000284 Zn2+ binding site [ion binding]; other site 907239000285 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 907239000286 flagellin B; Provisional; Region: PRK13588 907239000287 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 907239000288 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 907239000289 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 907239000290 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 907239000291 DNA topoisomerase I; Validated; Region: PRK05582 907239000292 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 907239000293 active site 907239000294 interdomain interaction site; other site 907239000295 putative metal-binding site [ion binding]; other site 907239000296 nucleotide binding site [chemical binding]; other site 907239000297 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 907239000298 domain I; other site 907239000299 DNA binding groove [nucleotide binding] 907239000300 phosphate binding site [ion binding]; other site 907239000301 domain II; other site 907239000302 domain III; other site 907239000303 nucleotide binding site [chemical binding]; other site 907239000304 catalytic site [active] 907239000305 domain IV; other site 907239000306 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 907239000307 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 907239000308 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 907239000309 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 907239000310 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 907239000311 FeS/SAM binding site; other site 907239000312 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 907239000313 phosphoenolpyruvate synthase; Validated; Region: PRK06464 907239000314 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 907239000315 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 907239000316 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 907239000317 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 907239000318 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 907239000319 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 907239000320 active site 907239000321 dimer interface [polypeptide binding]; other site 907239000322 motif 1; other site 907239000323 motif 2; other site 907239000324 motif 3; other site 907239000325 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 907239000326 anticodon binding site; other site 907239000327 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 907239000328 translation initiation factor IF-3; Region: infC; TIGR00168 907239000329 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 907239000330 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 907239000331 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 907239000332 23S rRNA binding site [nucleotide binding]; other site 907239000333 L21 binding site [polypeptide binding]; other site 907239000334 L13 binding site [polypeptide binding]; other site 907239000335 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239000336 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 907239000337 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 907239000338 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 907239000339 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 907239000340 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 907239000341 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 907239000342 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG3200 907239000343 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 907239000344 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 907239000345 catalytic triad [active] 907239000346 Uncharacterized conserved protein [Function unknown]; Region: COG1556 907239000347 iron-sulfur cluster-binding protein; Region: TIGR00273 907239000348 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 907239000349 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 907239000350 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 907239000351 Cysteine-rich domain; Region: CCG; pfam02754 907239000352 Cysteine-rich domain; Region: CCG; pfam02754 907239000353 L-lactate transport; Region: lctP; TIGR00795 907239000354 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 907239000355 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 907239000356 L-lactate transport; Region: lctP; TIGR00795 907239000357 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 907239000358 DNA glycosylase MutY; Provisional; Region: PRK13910 907239000359 minor groove reading motif; other site 907239000360 helix-hairpin-helix signature motif; other site 907239000361 substrate binding pocket [chemical binding]; other site 907239000362 active site 907239000363 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 907239000364 DNA binding and oxoG recognition site [nucleotide binding] 907239000365 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 907239000366 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 907239000367 transmembrane helices; other site 907239000368 cytochrome c oxidase, cbb3-type, subunit I; Region: ccoN; TIGR00780 907239000369 Low-spin heme binding site [chemical binding]; other site 907239000370 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 907239000371 D-pathway; other site 907239000372 Putative water exit pathway; other site 907239000373 Binuclear center (active site) [active] 907239000374 K-pathway; other site 907239000375 Putative proton exit pathway; other site 907239000376 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 907239000377 cytochrome c oxidase, cbb3-type, subunit II; Region: ccoO; TIGR00781 907239000378 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 907239000379 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 907239000380 Cytochrome c; Region: Cytochrom_C; pfam00034 907239000381 Cytochrome c; Region: Cytochrom_C; pfam00034 907239000382 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 907239000383 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 907239000384 recombinase A; Provisional; Region: recA; PRK09354 907239000385 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 907239000386 hexamer interface [polypeptide binding]; other site 907239000387 Walker A motif; other site 907239000388 ATP binding site [chemical binding]; other site 907239000389 Walker B motif; other site 907239000390 enolase; Provisional; Region: eno; PRK00077 907239000391 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 907239000392 dimer interface [polypeptide binding]; other site 907239000393 metal binding site [ion binding]; metal-binding site 907239000394 substrate binding pocket [chemical binding]; other site 907239000395 AMIN domain; Region: AMIN; pfam11741 907239000396 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 907239000397 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 907239000398 ADP binding site [chemical binding]; other site 907239000399 magnesium binding site [ion binding]; other site 907239000400 putative shikimate binding site; other site 907239000401 Cache domain; Region: Cache_1; pfam02743 907239000402 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 907239000403 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 907239000404 Ligand binding site; other site 907239000405 metal-binding site 907239000406 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 907239000407 Sel1-like repeats; Region: SEL1; smart00671 907239000408 Sel1-like repeats; Region: SEL1; smart00671 907239000409 Sel1-like repeats; Region: SEL1; smart00671 907239000410 Sel1-like repeats; Region: SEL1; smart00671 907239000411 Sel1-like repeats; Region: SEL1; smart00671 907239000412 Sel1-like repeats; Region: SEL1; smart00671 907239000413 hypothetical protein; Provisional; Region: PRK12378 907239000414 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 907239000415 dimer interface [polypeptide binding]; other site 907239000416 active site 907239000417 Schiff base residues; other site 907239000418 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 907239000419 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 907239000420 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 907239000421 dimer interface [polypeptide binding]; other site 907239000422 phosphorylation site [posttranslational modification] 907239000423 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 907239000424 ATP binding site [chemical binding]; other site 907239000425 Mg2+ binding site [ion binding]; other site 907239000426 G-X-G motif; other site 907239000427 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 907239000428 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 907239000429 active site 907239000430 phosphorylation site [posttranslational modification] 907239000431 intermolecular recognition site; other site 907239000432 dimerization interface [polypeptide binding]; other site 907239000433 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 907239000434 DNA binding site [nucleotide binding] 907239000435 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 907239000436 Peptidase family U32; Region: Peptidase_U32; pfam01136 907239000437 peptide chain release factor 2; Region: prfB; TIGR00020 907239000438 This domain is found in peptide chain release factors; Region: PCRF; smart00937 907239000439 RF-1 domain; Region: RF-1; pfam00472 907239000440 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 907239000441 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 907239000442 dimer interface [polypeptide binding]; other site 907239000443 putative functional site; other site 907239000444 putative MPT binding site; other site 907239000445 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 907239000446 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 907239000447 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 907239000448 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 907239000449 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 907239000450 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 907239000451 intersubunit interface [polypeptide binding]; other site 907239000452 active site 907239000453 zinc binding site [ion binding]; other site 907239000454 Na+ binding site [ion binding]; other site 907239000455 elongation factor P; Validated; Region: PRK00529 907239000456 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 907239000457 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 907239000458 RNA binding site [nucleotide binding]; other site 907239000459 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 907239000460 RNA binding site [nucleotide binding]; other site 907239000461 pseudaminic acid synthase; Region: PseI; TIGR03586 907239000462 NeuB family; Region: NeuB; pfam03102 907239000463 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 907239000464 NeuB binding interface [polypeptide binding]; other site 907239000465 putative substrate binding site [chemical binding]; other site 907239000466 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 907239000467 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 907239000468 Walker A/P-loop; other site 907239000469 ATP binding site [chemical binding]; other site 907239000470 Q-loop/lid; other site 907239000471 ABC transporter signature motif; other site 907239000472 Walker B; other site 907239000473 D-loop; other site 907239000474 H-loop/switch region; other site 907239000475 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 907239000476 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 907239000477 active site 907239000478 catalytic triad [active] 907239000479 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 907239000480 Colicin V production protein; Region: Colicin_V; pfam02674 907239000481 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 907239000482 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 907239000483 dimer interface [polypeptide binding]; other site 907239000484 putative anticodon binding site; other site 907239000485 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 907239000486 motif 1; other site 907239000487 active site 907239000488 motif 2; other site 907239000489 motif 3; other site 907239000490 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 907239000491 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 907239000492 dimer interface [polypeptide binding]; other site 907239000493 active site 907239000494 glycine-pyridoxal phosphate binding site [chemical binding]; other site 907239000495 folate binding site [chemical binding]; other site 907239000496 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cd00525 907239000497 nucleotide binding site [chemical binding]; other site 907239000498 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 907239000499 Sporulation related domain; Region: SPOR; cl10051 907239000500 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 907239000501 TIGR00645 family protein; Region: HI0507 907239000502 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 907239000503 PLD-like domain; Region: PLDc_2; pfam13091 907239000504 putative active site [active] 907239000505 catalytic site [active] 907239000506 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 907239000507 PLD-like domain; Region: PLDc_2; pfam13091 907239000508 putative active site [active] 907239000509 catalytic site [active] 907239000510 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 907239000511 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 907239000512 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 907239000513 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 907239000514 L-aspartate oxidase; Provisional; Region: PRK06175 907239000515 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 907239000516 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 907239000517 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 907239000518 Iron-sulfur protein interface; other site 907239000519 proximal heme binding site [chemical binding]; other site 907239000520 distal heme binding site [chemical binding]; other site 907239000521 dimer interface [polypeptide binding]; other site 907239000522 triosephosphate isomerase; Provisional; Region: PRK14565 907239000523 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 907239000524 substrate binding site [chemical binding]; other site 907239000525 dimer interface [polypeptide binding]; other site 907239000526 catalytic triad [active] 907239000527 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 907239000528 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 907239000529 NAD binding site [chemical binding]; other site 907239000530 homotetramer interface [polypeptide binding]; other site 907239000531 homodimer interface [polypeptide binding]; other site 907239000532 substrate binding site [chemical binding]; other site 907239000533 active site 907239000534 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 907239000535 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 907239000536 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 907239000537 trimer interface [polypeptide binding]; other site 907239000538 active site 907239000539 UDP-GlcNAc binding site [chemical binding]; other site 907239000540 lipid binding site [chemical binding]; lipid-binding site 907239000541 S-adenosylmethionine synthetase; Validated; Region: PRK05250 907239000542 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 907239000543 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 907239000544 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 907239000545 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 907239000546 active site 907239000547 multimer interface [polypeptide binding]; other site 907239000548 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 907239000549 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 907239000550 putative phosphate acyltransferase; Provisional; Region: PRK05331 907239000551 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 907239000552 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 907239000553 dimer interface [polypeptide binding]; other site 907239000554 active site 907239000555 CoA binding pocket [chemical binding]; other site 907239000556 AAA domain; Region: AAA_21; pfam13304 907239000557 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 907239000558 AAA domain; Region: AAA_21; pfam13304 907239000559 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907239000560 Walker B; other site 907239000561 D-loop; other site 907239000562 H-loop/switch region; other site 907239000563 antiporter inner membrane protein; Provisional; Region: PRK11670 907239000564 Domain of unknown function DUF59; Region: DUF59; pfam01883 907239000565 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 907239000566 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 907239000567 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 907239000568 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 907239000569 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 907239000570 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 907239000571 heat shock protein 90; Provisional; Region: PRK05218 907239000572 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 907239000573 ATP binding site [chemical binding]; other site 907239000574 Mg2+ binding site [ion binding]; other site 907239000575 G-X-G motif; other site 907239000576 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 907239000577 Sel1-like repeats; Region: SEL1; smart00671 907239000578 Sel1-like repeats; Region: SEL1; smart00671 907239000579 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 907239000580 TPR motif; other site 907239000581 binding surface 907239000582 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 907239000583 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 907239000584 metal binding site [ion binding]; metal-binding site 907239000585 dimer interface [polypeptide binding]; other site 907239000586 glucose-inhibited division protein A; Region: gidA; TIGR00136 907239000587 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 907239000588 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 907239000589 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 907239000590 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 907239000591 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 907239000592 transmembrane helices; other site 907239000593 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 907239000594 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 907239000595 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: Dxr; TIGR00243 907239000596 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 907239000597 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 907239000598 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 907239000599 Beta-1,4-N-acetylgalactosaminyltransferase (CgtA); Region: CgtA; pfam06306 907239000600 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 907239000601 substrate binding site [chemical binding]; other site 907239000602 Helix-turn-helix domain; Region: HTH_28; pfam13518 907239000603 cysteine desulfurase, NifS family, epsilon proteobacteria type; Region: nifS_epsilon; TIGR03403 907239000604 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 907239000605 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 907239000606 catalytic residue [active] 907239000607 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 907239000608 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 907239000609 trimerization site [polypeptide binding]; other site 907239000610 active site 907239000611 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 907239000612 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 907239000613 DNA repair protein RadA; Region: sms; TIGR00416 907239000614 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 907239000615 Walker A motif/ATP binding site; other site 907239000616 ATP binding site [chemical binding]; other site 907239000617 Walker B motif; other site 907239000618 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 907239000619 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 907239000620 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 907239000621 SelR domain; Region: SelR; pfam01641 907239000622 Predicted permeases [General function prediction only]; Region: COG0730 907239000623 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239000624 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 907239000625 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 907239000626 Sulfate transporter family; Region: Sulfate_transp; pfam00916 907239000627 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239000628 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 907239000629 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 907239000630 Ligand binding site; other site 907239000631 oligomer interface; other site 907239000632 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 907239000633 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 907239000634 hypothetical protein; Provisional; Region: PRK04081 907239000635 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 907239000636 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 907239000637 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 907239000638 Sel1-like repeats; Region: SEL1; smart00671 907239000639 Sel1-like repeats; Region: SEL1; smart00671 907239000640 Sel1-like repeats; Region: SEL1; smart00671 907239000641 Sel1-like repeats; Region: SEL1; smart00671 907239000642 Sel1-like repeats; Region: SEL1; smart00671 907239000643 Cytochrome c; Region: Cytochrom_C; cl11414 907239000644 Porphobilinogen deaminase [Coenzyme metabolism]; Region: HemC; COG0181 907239000645 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 907239000646 domain interfaces; other site 907239000647 active site 907239000648 prolyl-tRNA synthetase; Provisional; Region: PRK09194 907239000649 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 907239000650 dimer interface [polypeptide binding]; other site 907239000651 motif 1; other site 907239000652 active site 907239000653 motif 2; other site 907239000654 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 907239000655 putative deacylase active site [active] 907239000656 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 907239000657 active site 907239000658 motif 3; other site 907239000659 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 907239000660 anticodon binding site; other site 907239000661 glutamyl-tRNA reductase; Region: hemA; TIGR01035 907239000662 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 907239000663 tRNA; other site 907239000664 putative tRNA binding site [nucleotide binding]; other site 907239000665 putative NADP binding site [chemical binding]; other site 907239000666 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 907239000667 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 907239000668 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 907239000669 substrate binding pocket [chemical binding]; other site 907239000670 chain length determination region; other site 907239000671 substrate-Mg2+ binding site; other site 907239000672 catalytic residues [active] 907239000673 aspartate-rich region 1; other site 907239000674 active site lid residues [active] 907239000675 aspartate-rich region 2; other site 907239000676 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 907239000677 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 907239000678 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 907239000679 dimerization interface [polypeptide binding]; other site 907239000680 DPS ferroxidase diiron center [ion binding]; other site 907239000681 ion pore; other site 907239000682 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 907239000683 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 907239000684 dimer interface [polypeptide binding]; other site 907239000685 phosphorylation site [posttranslational modification] 907239000686 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 907239000687 ATP binding site [chemical binding]; other site 907239000688 Mg2+ binding site [ion binding]; other site 907239000689 G-X-G motif; other site 907239000690 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 907239000691 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 907239000692 helicase 45; Provisional; Region: PTZ00424 907239000693 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 907239000694 ATP binding site [chemical binding]; other site 907239000695 Mg++ binding site [ion binding]; other site 907239000696 motif III; other site 907239000697 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 907239000698 nucleotide binding region [chemical binding]; other site 907239000699 ATP-binding site [chemical binding]; other site 907239000700 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 907239000701 SPFH domain / Band 7 family; Region: Band_7; pfam01145 907239000702 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 907239000703 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 907239000704 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 907239000705 Walker A/P-loop; other site 907239000706 ATP binding site [chemical binding]; other site 907239000707 Q-loop/lid; other site 907239000708 ABC transporter signature motif; other site 907239000709 Walker B; other site 907239000710 D-loop; other site 907239000711 H-loop/switch region; other site 907239000712 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 907239000713 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 907239000714 Walker A/P-loop; other site 907239000715 ATP binding site [chemical binding]; other site 907239000716 Q-loop/lid; other site 907239000717 ABC transporter signature motif; other site 907239000718 Walker B; other site 907239000719 D-loop; other site 907239000720 H-loop/switch region; other site 907239000721 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 907239000722 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 907239000723 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 907239000724 dimer interface [polypeptide binding]; other site 907239000725 conserved gate region; other site 907239000726 putative PBP binding loops; other site 907239000727 ABC-ATPase subunit interface; other site 907239000728 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239000729 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239000730 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 907239000731 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 907239000732 GDP-binding site [chemical binding]; other site 907239000733 ACT binding site; other site 907239000734 IMP binding site; other site 907239000735 Uncharacterized conserved protein [Function unknown]; Region: COG3334 907239000736 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 907239000737 RIP metalloprotease RseP; Region: TIGR00054 907239000738 active site 907239000739 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 907239000740 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 907239000741 putative substrate binding region [chemical binding]; other site 907239000742 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 907239000743 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 907239000744 generic binding surface II; other site 907239000745 generic binding surface I; other site 907239000746 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 907239000747 DNA methylase; Region: N6_N4_Mtase; pfam01555 907239000748 DNA methylase; Region: N6_N4_Mtase; pfam01555 907239000749 potential frameshift: common BLAST hit: gi|308182436|ref|YP_003926563.1| Endonuclease MjaVIP 907239000750 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 907239000751 DNA methylase; Region: N6_N4_Mtase; pfam01555 907239000752 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 907239000753 Clp amino terminal domain; Region: Clp_N; pfam02861 907239000754 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 907239000755 Walker A motif; other site 907239000756 ATP binding site [chemical binding]; other site 907239000757 Walker B motif; other site 907239000758 arginine finger; other site 907239000759 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 907239000760 Walker A motif; other site 907239000761 ATP binding site [chemical binding]; other site 907239000762 Walker B motif; other site 907239000763 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 907239000764 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 907239000765 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 907239000766 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 907239000767 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 907239000768 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 907239000769 active site 907239000770 chlorohydrolase; Provisional; Region: PRK08418 907239000771 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 907239000772 active site 907239000773 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 907239000774 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 907239000775 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 907239000776 FeS/SAM binding site; other site 907239000777 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 907239000778 putative acyl-acceptor binding pocket; other site 907239000779 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 907239000780 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 907239000781 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 907239000782 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 907239000783 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 907239000784 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 907239000785 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 907239000786 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 907239000787 putative active site [active] 907239000788 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 907239000789 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 907239000790 putative acyl-acceptor binding pocket; other site 907239000791 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 907239000792 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 907239000793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 907239000794 TrkA-C domain; Region: TrkA_C; pfam02080 907239000795 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 907239000796 active site 907239000797 dimer interface [polypeptide binding]; other site 907239000798 metal binding site [ion binding]; metal-binding site 907239000799 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 907239000800 Mechanosensitive ion channel; Region: MS_channel; pfam00924 907239000801 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 907239000802 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 907239000803 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 907239000804 FeS/SAM binding site; other site 907239000805 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 907239000806 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 907239000807 Walker A motif; other site 907239000808 ATP binding site [chemical binding]; other site 907239000809 Walker B motif; other site 907239000810 arginine finger; other site 907239000811 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 907239000812 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907239000813 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907239000814 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 907239000815 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907239000816 Autotransporter beta-domain; Region: Autotransporter; pfam03797 907239000817 diaminopimelate decarboxylase; Region: lysA; TIGR01048 907239000818 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 907239000819 active site 907239000820 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 907239000821 substrate binding site [chemical binding]; other site 907239000822 catalytic residues [active] 907239000823 dimer interface [polypeptide binding]; other site 907239000824 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 907239000825 aminodeoxychorismate synthase; Provisional; Region: PRK07508 907239000826 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 907239000827 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 907239000828 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 907239000829 substrate-cofactor binding pocket; other site 907239000830 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907239000831 catalytic residue [active] 907239000832 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 907239000833 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 907239000834 multimer interface [polypeptide binding]; other site 907239000835 active site 907239000836 catalytic triad [active] 907239000837 dimer interface [polypeptide binding]; other site 907239000838 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08412 907239000839 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 907239000840 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 907239000841 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 907239000842 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 907239000843 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 907239000844 peptide binding site [polypeptide binding]; other site 907239000845 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 907239000846 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 907239000847 dimer interface [polypeptide binding]; other site 907239000848 conserved gate region; other site 907239000849 putative PBP binding loops; other site 907239000850 ABC-ATPase subunit interface; other site 907239000851 dipeptide transporter; Provisional; Region: PRK10913 907239000852 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 907239000853 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 907239000854 dimer interface [polypeptide binding]; other site 907239000855 conserved gate region; other site 907239000856 putative PBP binding loops; other site 907239000857 ABC-ATPase subunit interface; other site 907239000858 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 907239000859 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 907239000860 Walker A/P-loop; other site 907239000861 ATP binding site [chemical binding]; other site 907239000862 Q-loop/lid; other site 907239000863 ABC transporter signature motif; other site 907239000864 Walker B; other site 907239000865 D-loop; other site 907239000866 H-loop/switch region; other site 907239000867 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 907239000868 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 907239000869 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 907239000870 Walker A/P-loop; other site 907239000871 ATP binding site [chemical binding]; other site 907239000872 Q-loop/lid; other site 907239000873 ABC transporter signature motif; other site 907239000874 Walker B; other site 907239000875 D-loop; other site 907239000876 H-loop/switch region; other site 907239000877 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 907239000878 GTPase CgtA; Reviewed; Region: obgE; PRK12299 907239000879 GTP1/OBG; Region: GTP1_OBG; pfam01018 907239000880 Obg GTPase; Region: Obg; cd01898 907239000881 G1 box; other site 907239000882 GTP/Mg2+ binding site [chemical binding]; other site 907239000883 Switch I region; other site 907239000884 G2 box; other site 907239000885 G3 box; other site 907239000886 Switch II region; other site 907239000887 G4 box; other site 907239000888 G5 box; other site 907239000889 Alginate lyase; Region: Alginate_lyase; pfam05426 907239000890 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 907239000891 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 907239000892 inhibitor-cofactor binding pocket; inhibition site 907239000893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907239000894 catalytic residue [active] 907239000895 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 907239000896 Predicted amidohydrolase [General function prediction only]; Region: COG0388 907239000897 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 907239000898 active site 907239000899 catalytic triad [active] 907239000900 dimer interface [polypeptide binding]; other site 907239000901 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 907239000902 active site 907239000903 catalytic site [active] 907239000904 Zn binding site [ion binding]; other site 907239000905 tetramer interface [polypeptide binding]; other site 907239000906 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 907239000907 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 907239000908 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 907239000909 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 907239000910 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 907239000911 Major Facilitator Superfamily; Region: MFS_1; pfam07690 907239000912 putative substrate translocation pore; other site 907239000913 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239000914 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 907239000915 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 907239000916 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 907239000917 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 907239000918 arginyl-tRNA synthetase; Region: argS; TIGR00456 907239000919 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 907239000920 active site 907239000921 HIGH motif; other site 907239000922 KMSK motif region; other site 907239000923 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 907239000924 tRNA binding surface [nucleotide binding]; other site 907239000925 anticodon binding site; other site 907239000926 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 907239000927 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 907239000928 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 907239000929 catalytic site [active] 907239000930 G-X2-G-X-G-K; other site 907239000931 nuclease NucT; Provisional; Region: PRK13912 907239000932 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 907239000933 putative active site [active] 907239000934 catalytic site [active] 907239000935 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239000936 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 907239000937 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 907239000938 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 907239000939 ligand binding site; other site 907239000940 tetramer interface; other site 907239000941 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 907239000942 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 907239000943 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 907239000944 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 907239000945 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 907239000946 NAD synthetase; Provisional; Region: PRK13980 907239000947 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 907239000948 homodimer interface [polypeptide binding]; other site 907239000949 NAD binding pocket [chemical binding]; other site 907239000950 ATP binding pocket [chemical binding]; other site 907239000951 Mg binding site [ion binding]; other site 907239000952 active-site loop [active] 907239000953 potential protein location (hypothetical protein HPSA_01680 [Helicobacter pylori SouthAfrica7]) that overlaps RNA (tRNA-R) 907239000954 ketol-acid reductoisomerase; Provisional; Region: PRK05479 907239000955 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 907239000956 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 907239000957 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 907239000958 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 907239000959 Switch I; other site 907239000960 Switch II; other site 907239000961 cell division topological specificity factor MinE; Region: minE; TIGR01215 907239000962 DNA protecting protein DprA; Region: dprA; TIGR00732 907239000963 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 907239000964 Uncharacterized protein family (UPF0081); Region: UPF0081; cl17278 907239000965 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 907239000966 Sel1-like repeats; Region: SEL1; smart00671 907239000967 Sel1-like repeats; Region: SEL1; smart00671 907239000968 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 907239000969 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 907239000970 active site 907239000971 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 907239000972 DHH family; Region: DHH; pfam01368 907239000973 DHHA1 domain; Region: DHHA1; pfam02272 907239000974 CTP synthetase; Validated; Region: pyrG; PRK05380 907239000975 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 907239000976 Catalytic site [active] 907239000977 active site 907239000978 UTP binding site [chemical binding]; other site 907239000979 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 907239000980 active site 907239000981 putative oxyanion hole; other site 907239000982 catalytic triad [active] 907239000983 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 907239000984 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 907239000985 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 907239000986 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 907239000987 flagellar motor switch protein FliG; Region: fliG; TIGR00207 907239000988 FliG C-terminal domain; Region: FliG_C; pfam01706 907239000989 flagellar assembly protein H; Validated; Region: fliH; PRK06669 907239000990 Flagellar assembly protein FliH; Region: FliH; pfam02108 907239000991 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 907239000992 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 907239000993 TPP-binding site; other site 907239000994 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 907239000995 PYR/PP interface [polypeptide binding]; other site 907239000996 dimer interface [polypeptide binding]; other site 907239000997 TPP binding site [chemical binding]; other site 907239000998 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 907239000999 GTP-binding protein LepA; Provisional; Region: PRK05433 907239001000 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 907239001001 G1 box; other site 907239001002 putative GEF interaction site [polypeptide binding]; other site 907239001003 GTP/Mg2+ binding site [chemical binding]; other site 907239001004 Switch I region; other site 907239001005 G2 box; other site 907239001006 G3 box; other site 907239001007 Switch II region; other site 907239001008 G4 box; other site 907239001009 G5 box; other site 907239001010 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 907239001011 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 907239001012 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 907239001013 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 907239001014 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 907239001015 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 907239001016 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 907239001017 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 907239001018 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 907239001019 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 907239001020 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 907239001021 active site 907239001022 metal binding site [ion binding]; metal-binding site 907239001023 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 907239001024 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 907239001025 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 907239001026 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 907239001027 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 907239001028 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 907239001029 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 907239001030 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 907239001031 TPP-binding site [chemical binding]; other site 907239001032 dimer interface [polypeptide binding]; other site 907239001033 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 907239001034 PYR/PP interface [polypeptide binding]; other site 907239001035 dimer interface [polypeptide binding]; other site 907239001036 TPP binding site [chemical binding]; other site 907239001037 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 907239001038 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 907239001039 riboflavin kinase/FMN adenylyltransferase; Region: ribF; TIGR00083 907239001040 active site 907239001041 Riboflavin kinase; Region: Flavokinase; pfam01687 907239001042 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 907239001043 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 907239001044 RNA binding surface [nucleotide binding]; other site 907239001045 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 907239001046 S-adenosylmethionine binding site [chemical binding]; other site 907239001047 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 907239001048 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 907239001049 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 907239001050 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 907239001051 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 907239001052 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 907239001053 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907239001054 Walker A/P-loop; other site 907239001055 ATP binding site [chemical binding]; other site 907239001056 Q-loop/lid; other site 907239001057 ABC transporter signature motif; other site 907239001058 Walker B; other site 907239001059 D-loop; other site 907239001060 H-loop/switch region; other site 907239001061 Predicted endonuclease distantly related to archaeal Holliday junction resolvase and Mrr-like restriction enzymes [Defense mechanisms]; Region: COG1787 907239001062 Restriction endonuclease; Region: Mrr_cat; pfam04471 907239001063 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 907239001064 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 907239001065 active site 907239001066 Zn binding site [ion binding]; other site 907239001067 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 907239001068 metal-binding site [ion binding] 907239001069 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 907239001070 metal-binding site [ion binding] 907239001071 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 907239001072 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 907239001073 Soluble P-type ATPase [General function prediction only]; Region: COG4087 907239001074 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 907239001075 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 907239001076 FtsH Extracellular; Region: FtsH_ext; pfam06480 907239001077 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 907239001078 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 907239001079 Walker A motif; other site 907239001080 ATP binding site [chemical binding]; other site 907239001081 Walker B motif; other site 907239001082 arginine finger; other site 907239001083 Peptidase family M41; Region: Peptidase_M41; pfam01434 907239001084 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 907239001085 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 907239001086 S-adenosylmethionine binding site [chemical binding]; other site 907239001087 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 907239001088 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 907239001089 active site 907239001090 phosphorylation site [posttranslational modification] 907239001091 intermolecular recognition site; other site 907239001092 dimerization interface [polypeptide binding]; other site 907239001093 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239001094 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 907239001095 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 907239001096 S-adenosylmethionine binding site [chemical binding]; other site 907239001097 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 907239001098 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 907239001099 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 907239001100 sec-independent translocase; Provisional; Region: PRK04098 907239001101 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 907239001102 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 907239001103 Walker A motif; other site 907239001104 ATP binding site [chemical binding]; other site 907239001105 Walker B motif; other site 907239001106 arginine finger; other site 907239001107 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 907239001108 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 907239001109 oligomerization interface [polypeptide binding]; other site 907239001110 active site 907239001111 metal binding site [ion binding]; metal-binding site 907239001112 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239001113 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239001114 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 907239001115 septum formation inhibitor; Reviewed; Region: minC; PRK00556 907239001116 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 907239001117 UDP-3-0-acyl N-acetylglucosamine deacetylase; Region: lpxC; TIGR00325 907239001118 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 907239001119 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 907239001120 homoserine kinase; Region: thrB; TIGR00191 907239001121 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 907239001122 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 907239001123 translation initiation factor IF-2; Region: IF-2; TIGR00487 907239001124 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 907239001125 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 907239001126 G1 box; other site 907239001127 putative GEF interaction site [polypeptide binding]; other site 907239001128 GTP/Mg2+ binding site [chemical binding]; other site 907239001129 Switch I region; other site 907239001130 G2 box; other site 907239001131 G3 box; other site 907239001132 Switch II region; other site 907239001133 G4 box; other site 907239001134 G5 box; other site 907239001135 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 907239001136 Translation-initiation factor 2; Region: IF-2; pfam11987 907239001137 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 907239001138 Ribosome-binding factor A; Region: RBFA; cl00542 907239001139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 907239001140 Sm and related proteins; Region: Sm_like; cl00259 907239001141 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 907239001142 putative oligomer interface [polypeptide binding]; other site 907239001143 putative RNA binding site [nucleotide binding]; other site 907239001144 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 907239001145 putative active site [active] 907239001146 putative metal binding site [ion binding]; other site 907239001147 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 907239001148 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 907239001149 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 907239001150 active site 907239001151 intermolecular recognition site; other site 907239001152 dimerization interface [polypeptide binding]; other site 907239001153 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 907239001154 DNA binding site [nucleotide binding] 907239001155 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 907239001156 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 907239001157 FHIPEP family; Region: FHIPEP; pfam00771 907239001158 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 907239001159 16S/18S rRNA binding site [nucleotide binding]; other site 907239001160 S13e-L30e interaction site [polypeptide binding]; other site 907239001161 25S rRNA binding site [nucleotide binding]; other site 907239001162 Dehydroquinase class II; Region: DHquinase_II; pfam01220 907239001163 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 907239001164 trimer interface [polypeptide binding]; other site 907239001165 active site 907239001166 dimer interface [polypeptide binding]; other site 907239001167 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 907239001168 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 907239001169 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 907239001170 active site 907239001171 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 907239001172 catalytic center binding site [active] 907239001173 ATP binding site [chemical binding]; other site 907239001174 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 907239001175 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 907239001176 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 907239001177 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 907239001178 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 907239001179 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 907239001180 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 907239001181 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 907239001182 DNA binding residues [nucleotide binding] 907239001183 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 907239001184 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 907239001185 flagellar motor switch protein FliY; Validated; Region: PRK08432 907239001186 flagellar motor switch protein FliN; Region: fliN; TIGR02480 907239001187 Domain of unknown function (DUF386); Region: DUF386; cl01047 907239001188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 907239001189 ferric uptake regulator; Provisional; Region: fur; PRK09462 907239001190 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 907239001191 metal binding site 2 [ion binding]; metal-binding site 907239001192 putative DNA binding helix; other site 907239001193 metal binding site 1 [ion binding]; metal-binding site 907239001194 dimer interface [polypeptide binding]; other site 907239001195 structural Zn2+ binding site [ion binding]; other site 907239001196 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 907239001197 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 907239001198 Walker A motif; other site 907239001199 ATP binding site [chemical binding]; other site 907239001200 Walker B motif; other site 907239001201 arginine finger; other site 907239001202 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 907239001203 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 907239001204 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 907239001205 DNA binding residues [nucleotide binding] 907239001206 putative dimer interface [polypeptide binding]; other site 907239001207 chaperone protein DnaJ; Provisional; Region: PRK14299 907239001208 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 907239001209 HSP70 interaction site [polypeptide binding]; other site 907239001210 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 907239001211 substrate binding site [polypeptide binding]; other site 907239001212 dimer interface [polypeptide binding]; other site 907239001213 5'-3' exonuclease; Provisional; Region: PRK14976 907239001214 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 907239001215 putative active site [active] 907239001216 Helix-hairpin-helix class 2 (Pol1 family) motifs; Region: HhH2; smart00279 907239001217 DNA binding site [nucleotide binding] 907239001218 metal binding site [ion binding]; metal-binding site 907239001219 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 907239001220 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 907239001221 active site 907239001222 dimerization interface [polypeptide binding]; other site 907239001223 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 907239001224 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 907239001225 substrate binding site; other site 907239001226 dimer interface; other site 907239001227 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 907239001228 homotrimer interaction site [polypeptide binding]; other site 907239001229 zinc binding site [ion binding]; other site 907239001230 CDP-binding sites; other site 907239001231 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 907239001232 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 907239001233 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 907239001234 protein binding site [polypeptide binding]; other site 907239001235 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 907239001236 protein binding site [polypeptide binding]; other site 907239001237 S-methylmethionine transporter; Provisional; Region: PRK11387 907239001238 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 907239001239 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 907239001240 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 907239001241 putative NAD(P) binding site [chemical binding]; other site 907239001242 active site 907239001243 dihydrodipicolinate synthase; Region: dapA; TIGR00674 907239001244 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 907239001245 dimer interface [polypeptide binding]; other site 907239001246 active site 907239001247 catalytic residue [active] 907239001248 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 907239001249 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 907239001250 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 907239001251 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 907239001252 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 907239001253 quinone interaction residues [chemical binding]; other site 907239001254 active site 907239001255 catalytic residues [active] 907239001256 FMN binding site [chemical binding]; other site 907239001257 substrate binding site [chemical binding]; other site 907239001258 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 907239001259 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 907239001260 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 907239001261 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 907239001262 putative domain interface [polypeptide binding]; other site 907239001263 putative active site [active] 907239001264 catalytic site [active] 907239001265 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 907239001266 putative active site [active] 907239001267 putative domain interface [polypeptide binding]; other site 907239001268 catalytic site [active] 907239001269 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 907239001270 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 907239001271 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 907239001272 potential frameshift: common BLAST hit: gi|109947644|ref|YP_664872.1| type I restriction enzyme M protein 907239001273 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 907239001274 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 907239001275 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 907239001276 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 907239001277 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 907239001278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 907239001279 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 907239001280 putative metal binding site [ion binding]; other site 907239001281 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 907239001282 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 907239001283 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 907239001284 active site 907239001285 Zn binding site [ion binding]; other site 907239001286 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 907239001287 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 907239001288 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239001289 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 907239001290 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 907239001291 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 907239001292 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 907239001293 dimer interface [polypeptide binding]; other site 907239001294 conserved gate region; other site 907239001295 putative PBP binding loops; other site 907239001296 ABC-ATPase subunit interface; other site 907239001297 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 907239001298 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907239001299 Walker A/P-loop; other site 907239001300 ATP binding site [chemical binding]; other site 907239001301 Q-loop/lid; other site 907239001302 ABC transporter signature motif; other site 907239001303 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 907239001304 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 907239001305 active site 907239001306 HIGH motif; other site 907239001307 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 907239001308 active site 907239001309 KMSKS motif; other site 907239001310 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239001311 Helix-turn-helix domain; Region: HTH_17; pfam12728 907239001312 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 907239001313 Methyltransferase domain; Region: Methyltransf_26; pfam13659 907239001314 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 907239001315 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 907239001316 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 907239001317 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 907239001318 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 907239001319 G1 box; other site 907239001320 putative GEF interaction site [polypeptide binding]; other site 907239001321 GTP/Mg2+ binding site [chemical binding]; other site 907239001322 Switch I region; other site 907239001323 G2 box; other site 907239001324 G3 box; other site 907239001325 Switch II region; other site 907239001326 G4 box; other site 907239001327 G5 box; other site 907239001328 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 907239001329 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 907239001330 metabolite-proton symporter; Region: 2A0106; TIGR00883 907239001331 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 907239001332 putative substrate translocation pore; other site 907239001333 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 907239001334 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 907239001335 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 907239001336 cofactor binding site; other site 907239001337 DNA binding site [nucleotide binding] 907239001338 substrate interaction site [chemical binding]; other site 907239001339 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 907239001340 putative heme binding pocket [chemical binding]; other site 907239001341 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 907239001342 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 907239001343 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 907239001344 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 907239001345 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 907239001346 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 907239001347 TrkA-N domain; Region: TrkA_N; pfam02254 907239001348 TrkA-C domain; Region: TrkA_C; pfam02080 907239001349 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 907239001350 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 907239001351 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 907239001352 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 907239001353 Mg++ binding site [ion binding]; other site 907239001354 putative catalytic motif [active] 907239001355 putative substrate binding site [chemical binding]; other site 907239001356 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 907239001357 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 907239001358 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 907239001359 Protein of unknown function (DUF493); Region: DUF493; pfam04359 907239001360 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 907239001361 active site 907239001362 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 907239001363 Na2 binding site [ion binding]; other site 907239001364 putative substrate binding site 1 [chemical binding]; other site 907239001365 Na binding site 1 [ion binding]; other site 907239001366 putative substrate binding site 2 [chemical binding]; other site 907239001367 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 907239001368 Na2 binding site [ion binding]; other site 907239001369 putative substrate binding site 1 [chemical binding]; other site 907239001370 Na binding site 1 [ion binding]; other site 907239001371 putative substrate binding site 2 [chemical binding]; other site 907239001372 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 907239001373 dimerization interface [polypeptide binding]; other site 907239001374 substrate binding site [chemical binding]; other site 907239001375 active site 907239001376 calcium binding site [ion binding]; other site 907239001377 DNA polymerase III, beta subunit; Region: dnan; TIGR00663 907239001378 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 907239001379 putative DNA binding surface [nucleotide binding]; other site 907239001380 dimer interface [polypeptide binding]; other site 907239001381 beta-clamp/translesion DNA polymerase binding surface; other site 907239001382 beta-clamp/clamp loader binding surface; other site 907239001383 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 907239001384 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 907239001385 Mg2+ binding site [ion binding]; other site 907239001386 G-X-G motif; other site 907239001387 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 907239001388 anchoring element; other site 907239001389 dimer interface [polypeptide binding]; other site 907239001390 ATP binding site [chemical binding]; other site 907239001391 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 907239001392 active site 907239001393 putative metal-binding site [ion binding]; other site 907239001394 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 907239001395 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 907239001396 Peptidase family M23; Region: Peptidase_M23; pfam01551 907239001397 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 907239001398 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 907239001399 dimer interface [polypeptide binding]; other site 907239001400 ADP-ribose binding site [chemical binding]; other site 907239001401 active site 907239001402 nudix motif; other site 907239001403 metal binding site [ion binding]; metal-binding site 907239001404 FAD binding domain; Region: FAD_binding_4; pfam01565 907239001405 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 907239001406 dihydrodipicolinate reductase; Region: dapB; TIGR00036 907239001407 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 907239001408 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 907239001409 potential frameshift: common BLAST hit: gi|256829078|ref|YP_003157806.1| ATPase AAA 907239001410 AAA domain; Region: AAA_11; pfam13086 907239001411 Part of AAA domain; Region: AAA_19; pfam13245 907239001412 AAA domain; Region: AAA_30; pfam13604 907239001413 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 907239001414 AAA domain; Region: AAA_12; pfam13087 907239001415 IncA protein; Region: IncA; pfam04156 907239001416 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 907239001417 GTPase Era; Reviewed; Region: era; PRK00089 907239001418 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 907239001419 G1 box; other site 907239001420 GTP/Mg2+ binding site [chemical binding]; other site 907239001421 Switch I region; other site 907239001422 G2 box; other site 907239001423 Switch II region; other site 907239001424 G3 box; other site 907239001425 G4 box; other site 907239001426 G5 box; other site 907239001427 KH domain; Region: KH_2; pfam07650 907239001428 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 907239001429 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 907239001430 Walker A motif; other site 907239001431 ATP binding site [chemical binding]; other site 907239001432 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 907239001433 Walker B motif; other site 907239001434 arginine finger; other site 907239001435 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 907239001436 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 907239001437 active site 907239001438 HslU subunit interaction site [polypeptide binding]; other site 907239001439 ribosomal protein L9; Region: L9; TIGR00158 907239001440 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 907239001441 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 907239001442 glutamine synthetase, type I; Region: GlnA; TIGR00653 907239001443 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 907239001444 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 907239001445 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 907239001446 Sel1 repeat; Region: Sel1; cl02723 907239001447 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 907239001448 transcription termination factor Rho; Provisional; Region: rho; PRK09376 907239001449 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 907239001450 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 907239001451 RNA binding site [nucleotide binding]; other site 907239001452 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 907239001453 multimer interface [polypeptide binding]; other site 907239001454 Walker A motif; other site 907239001455 ATP binding site [chemical binding]; other site 907239001456 Walker B motif; other site 907239001457 Ribosomal protein L31; Region: Ribosomal_L31; pfam01197 907239001458 Predicted methyltransferases [General function prediction only]; Region: COG0313 907239001459 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 907239001460 putative SAM binding site [chemical binding]; other site 907239001461 putative homodimer interface [polypeptide binding]; other site 907239001462 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 907239001463 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 907239001464 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 907239001465 acetyl-CoA carboxylase, carboxyl transferase, alpha subunit; Region: accA; TIGR00513 907239001466 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 907239001467 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 907239001468 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 907239001469 dimer interface [polypeptide binding]; other site 907239001470 active site 907239001471 acyl carrier protein; Provisional; Region: acpP; PRK00982 907239001472 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 907239001473 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 907239001474 NAD(P) binding site [chemical binding]; other site 907239001475 active site 907239001476 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 907239001477 Predicted membrane protein [Function unknown]; Region: COG3059 907239001478 diaminopimelate epimerase; Region: DapF; TIGR00652 907239001479 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 907239001480 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 907239001481 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 907239001482 Domain of unknown function DUF20; Region: UPF0118; pfam01594 907239001483 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 907239001484 GTP-binding protein YchF; Reviewed; Region: PRK09601 907239001485 YchF GTPase; Region: YchF; cd01900 907239001486 G1 box; other site 907239001487 GTP/Mg2+ binding site [chemical binding]; other site 907239001488 Switch I region; other site 907239001489 G2 box; other site 907239001490 Switch II region; other site 907239001491 G3 box; other site 907239001492 G4 box; other site 907239001493 G5 box; other site 907239001494 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 907239001495 multifunctional aminopeptidase A; Provisional; Region: PRK00913 907239001496 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 907239001497 interface (dimer of trimers) [polypeptide binding]; other site 907239001498 Substrate-binding/catalytic site; other site 907239001499 Zn-binding sites [ion binding]; other site 907239001500 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 907239001501 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 907239001502 active site 907239001503 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 907239001504 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 907239001505 Peptidase family M50; Region: Peptidase_M50; pfam02163 907239001506 active site 907239001507 putative substrate binding region [chemical binding]; other site 907239001508 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 907239001509 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 907239001510 Catalytic site [active] 907239001511 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 907239001512 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 907239001513 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 907239001514 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 907239001515 homodimer interface [polypeptide binding]; other site 907239001516 NADP binding site [chemical binding]; other site 907239001517 substrate binding site [chemical binding]; other site 907239001518 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 907239001519 Sulfatase; Region: Sulfatase; pfam00884 907239001520 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 907239001521 BNR repeat-like domain; Region: BNR_2; pfam13088 907239001522 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 907239001523 active site 907239001524 substrate binding pocket [chemical binding]; other site 907239001525 dimer interface [polypeptide binding]; other site 907239001526 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 907239001527 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 907239001528 flagellar motor switch protein; Validated; Region: PRK08433 907239001529 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 907239001530 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 907239001531 minor groove reading motif; other site 907239001532 helix-hairpin-helix signature motif; other site 907239001533 substrate binding pocket [chemical binding]; other site 907239001534 active site 907239001535 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 907239001536 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 907239001537 Protein of unknown function; Region: DUF3971; pfam13116 907239001538 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 907239001539 YceG-like family; Region: YceG; pfam02618 907239001540 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 907239001541 dimerization interface [polypeptide binding]; other site 907239001542 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 907239001543 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 907239001544 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 907239001545 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 907239001546 dimer interface [polypeptide binding]; other site 907239001547 PYR/PP interface [polypeptide binding]; other site 907239001548 TPP binding site [chemical binding]; other site 907239001549 substrate binding site [chemical binding]; other site 907239001550 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 907239001551 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 907239001552 TPP-binding site [chemical binding]; other site 907239001553 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 907239001554 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 907239001555 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 907239001556 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 907239001557 Transposase IS200 like; Region: Y1_Tnp; pfam01797 907239001558 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 907239001559 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 907239001560 Probable transposase; Region: OrfB_IS605; pfam01385 907239001561 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 907239001562 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 907239001563 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 907239001564 tumor necrosis factor alpha-inducing protein; Reviewed; Region: PRK12303 907239001565 Transglycosylase; Region: Transgly; pfam00912 907239001566 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 907239001567 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 907239001568 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 907239001569 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 907239001570 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 907239001571 catalytic residue [active] 907239001572 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 907239001573 dimer interface [polypeptide binding]; other site 907239001574 putative CheW interface [polypeptide binding]; other site 907239001575 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 907239001576 potential frameshift: common BLAST hit: gi|210134801|ref|YP_002301240.1| multidrug resistance protein 907239001577 flagellin A; Reviewed; Region: PRK12584 907239001578 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 907239001579 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 907239001580 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 907239001581 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 907239001582 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 907239001583 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 907239001584 minor groove reading motif; other site 907239001585 helix-hairpin-helix signature motif; other site 907239001586 active site 907239001587 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 907239001588 substrate binding site [chemical binding]; other site 907239001589 active site 907239001590 Outer membrane efflux protein; Region: OEP; pfam02321 907239001591 Outer membrane efflux protein; Region: OEP; pfam02321 907239001592 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 907239001593 HlyD family secretion protein; Region: HlyD_3; pfam13437 907239001594 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 907239001595 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239001596 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 907239001597 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907239001598 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907239001599 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907239001600 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907239001601 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 907239001602 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907239001603 Autotransporter beta-domain; Region: Autotransporter; pfam03797 907239001604 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 907239001605 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 907239001606 nucleotide binding pocket [chemical binding]; other site 907239001607 K-X-D-G motif; other site 907239001608 catalytic site [active] 907239001609 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 907239001610 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 907239001611 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 907239001612 Dimer interface [polypeptide binding]; other site 907239001613 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 907239001614 Response regulator receiver domain; Region: Response_reg; pfam00072 907239001615 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 907239001616 active site 907239001617 phosphorylation site [posttranslational modification] 907239001618 intermolecular recognition site; other site 907239001619 dimerization interface [polypeptide binding]; other site 907239001620 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 907239001621 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 907239001622 dimer interface [polypeptide binding]; other site 907239001623 anticodon binding site; other site 907239001624 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 907239001625 homodimer interface [polypeptide binding]; other site 907239001626 motif 1; other site 907239001627 active site 907239001628 motif 2; other site 907239001629 GAD domain; Region: GAD; pfam02938 907239001630 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 907239001631 active site 907239001632 motif 3; other site 907239001633 adenylate kinase; Reviewed; Region: adk; PRK00279 907239001634 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 907239001635 AMP-binding site [chemical binding]; other site 907239001636 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 907239001637 potential frameshift: common BLAST hit: gi|15611629|ref|NP_223280.1| putative lipopolysaccharide biosynthesis protein 907239001638 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 907239001639 Glycosyltransferase involved in LPS biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG3306 907239001640 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 907239001641 dimer interface [polypeptide binding]; other site 907239001642 substrate binding site [chemical binding]; other site 907239001643 metal binding sites [ion binding]; metal-binding site 907239001644 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 907239001645 ATPase domain of DNA mismatch repair MUTS family; Region: MUTSac; smart00534 907239001646 Walker A/P-loop; other site 907239001647 ATP binding site [chemical binding]; other site 907239001648 Q-loop/lid; other site 907239001649 ABC transporter signature motif; other site 907239001650 Walker B; other site 907239001651 D-loop; other site 907239001652 H-loop/switch region; other site 907239001653 Smr domain; Region: Smr; pfam01713 907239001654 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 907239001655 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 907239001656 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 907239001657 hypothetical protein; Provisional; Region: PRK05839 907239001658 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 907239001659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907239001660 homodimer interface [polypeptide binding]; other site 907239001661 catalytic residue [active] 907239001662 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 907239001663 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 907239001664 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 907239001665 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 907239001666 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 907239001667 putative trimer interface [polypeptide binding]; other site 907239001668 putative CoA binding site [chemical binding]; other site 907239001669 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 907239001670 Sel1-like repeats; Region: SEL1; smart00671 907239001671 Sel1-like repeats; Region: SEL1; smart00671 907239001672 Sel1 repeat; Region: Sel1; cl02723 907239001673 Sel1-like repeats; Region: SEL1; smart00671 907239001674 Uncharacterized conserved protein [Function unknown]; Region: COG1479 907239001675 Protein of unknown function DUF262; Region: DUF262; pfam03235 907239001676 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 907239001677 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 907239001678 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 907239001679 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 907239001680 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 907239001681 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 907239001682 Ni,Fe-hydrogenase I cytochrome b subunit [Energy production and conversion]; Region: HyaC; COG1969 907239001683 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 907239001684 nickel binding site [ion binding]; other site 907239001685 putative substrate-binding site; other site 907239001686 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239001687 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 907239001688 Ligand Binding Site [chemical binding]; other site 907239001689 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 907239001690 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 907239001691 active site 907239001692 NTP binding site [chemical binding]; other site 907239001693 metal binding triad [ion binding]; metal-binding site 907239001694 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 907239001695 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 907239001696 putative hydrophobic ligand binding site [chemical binding]; other site 907239001697 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 907239001698 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 907239001699 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 907239001700 dimer interface [polypeptide binding]; other site 907239001701 FMN binding site [chemical binding]; other site 907239001702 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 907239001703 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 907239001704 active site 907239001705 HIGH motif; other site 907239001706 nucleotide binding site [chemical binding]; other site 907239001707 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 907239001708 active site 907239001709 KMSKS motif; other site 907239001710 YGGT family; Region: YGGT; pfam02325 907239001711 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 907239001712 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 907239001713 N-acetyl-D-glucosamine binding site [chemical binding]; other site 907239001714 catalytic residue [active] 907239001715 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 907239001716 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 907239001717 active site 907239001718 tetramer interface; other site 907239001719 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 907239001720 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 907239001721 hinge; other site 907239001722 active site 907239001723 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 907239001724 Aspartase; Region: Aspartase; cd01357 907239001725 active sites [active] 907239001726 tetramer interface [polypeptide binding]; other site 907239001727 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 907239001728 ligand binding site [chemical binding]; other site 907239001729 active site 907239001730 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 907239001731 phosphoserine phosphatase SerB; Region: serB; TIGR00338 907239001732 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 907239001733 motif II; other site 907239001734 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 907239001735 Ferritin-like domain; Region: Ferritin; pfam00210 907239001736 ferroxidase diiron center [ion binding]; other site 907239001737 hypothetical protein; Provisional; Region: PRK08444 907239001738 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 907239001739 FeS/SAM binding site; other site 907239001740 potential frameshift: common BLAST hit: gi|254779358|ref|YP_003057463.1| putative surface antigen protein; putative signal peptide 907239001741 hypothetical protein; Provisional; Region: PRK08445 907239001742 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 907239001743 FeS/SAM binding site; other site 907239001744 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 907239001745 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 907239001746 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 907239001747 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 907239001748 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 907239001749 GatB domain; Region: GatB_Yqey; smart00845 907239001750 SurA N-terminal domain; Region: SurA_N; pfam09312 907239001751 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 907239001752 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]; Region: COG1439 907239001753 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 907239001754 RNA/DNA hybrid binding site [nucleotide binding]; other site 907239001755 active site 907239001756 ribonuclease III; Reviewed; Region: rnc; PRK00102 907239001757 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 907239001758 dimerization interface [polypeptide binding]; other site 907239001759 active site 907239001760 metal binding site [ion binding]; metal-binding site 907239001761 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 907239001762 dsRNA binding site [nucleotide binding]; other site 907239001763 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 907239001764 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 907239001765 Tetramer interface [polypeptide binding]; other site 907239001766 active site 907239001767 FMN-binding site [chemical binding]; other site 907239001768 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 907239001769 oxygen-independent coproporphyrinogen III oxidase; Region: hemN; TIGR00538 907239001770 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 907239001771 FeS/SAM binding site; other site 907239001772 HemN C-terminal domain; Region: HemN_C; pfam06969 907239001773 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 907239001774 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 907239001775 Cysteine-rich domain; Region: CCG; pfam02754 907239001776 Cysteine-rich domain; Region: CCG; pfam02754 907239001777 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 907239001778 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 907239001779 Predicted helicase [General function prediction only]; Region: COG4889 907239001780 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 907239001781 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239001782 aspartate aminotransferase; Provisional; Region: PRK05764 907239001783 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 907239001784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907239001785 homodimer interface [polypeptide binding]; other site 907239001786 catalytic residue [active] 907239001787 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 907239001788 active site 907239001789 DNA binding site [nucleotide binding] 907239001790 Int/Topo IB signature motif; other site 907239001791 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 907239001792 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 907239001793 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 907239001794 DNA binding site [nucleotide binding] 907239001795 active site 907239001796 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 907239001797 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 907239001798 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 907239001799 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 907239001800 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 907239001801 ATP cone domain; Region: ATP-cone; pfam03477 907239001802 Class I ribonucleotide reductase; Region: RNR_I; cd01679 907239001803 active site 907239001804 dimer interface [polypeptide binding]; other site 907239001805 catalytic residues [active] 907239001806 effector binding site; other site 907239001807 R2 peptide binding site; other site 907239001808 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 907239001809 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 907239001810 Substrate binding site; other site 907239001811 Mg++ binding site; other site 907239001812 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 907239001813 active site 907239001814 substrate binding site [chemical binding]; other site 907239001815 CoA binding site [chemical binding]; other site 907239001816 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 907239001817 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 907239001818 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 907239001819 N-terminal plug; other site 907239001820 ligand-binding site [chemical binding]; other site 907239001821 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 907239001822 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 907239001823 G1 box; other site 907239001824 GTP/Mg2+ binding site [chemical binding]; other site 907239001825 Switch I region; other site 907239001826 G2 box; other site 907239001827 G3 box; other site 907239001828 Switch II region; other site 907239001829 G4 box; other site 907239001830 G5 box; other site 907239001831 Nucleoside recognition; Region: Gate; pfam07670 907239001832 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 907239001833 Nucleoside recognition; Region: Gate; pfam07670 907239001834 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 907239001835 active site 907239001836 catalytic site [active] 907239001837 substrate binding site [chemical binding]; other site 907239001838 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 907239001839 putative acyltransferase; Provisional; Region: PRK05790 907239001840 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 907239001841 dimer interface [polypeptide binding]; other site 907239001842 active site 907239001843 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 907239001844 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 907239001845 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 907239001846 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3528 907239001847 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 907239001848 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 907239001849 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 907239001850 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 907239001851 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 907239001852 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 907239001853 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 907239001854 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 907239001855 DNA gyrase subunit A; Validated; Region: PRK05560 907239001856 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 907239001857 CAP-like domain; other site 907239001858 active site 907239001859 primary dimer interface [polypeptide binding]; other site 907239001860 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 907239001861 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 907239001862 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 907239001863 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 907239001864 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 907239001865 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 907239001866 Response regulator receiver domain; Region: Response_reg; pfam00072 907239001867 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 907239001868 active site 907239001869 phosphorylation site [posttranslational modification] 907239001870 intermolecular recognition site; other site 907239001871 dimerization interface [polypeptide binding]; other site 907239001872 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 907239001873 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 907239001874 Walker A motif; other site 907239001875 ATP binding site [chemical binding]; other site 907239001876 Walker B motif; other site 907239001877 arginine finger; other site 907239001878 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 907239001879 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 907239001880 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 907239001881 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 907239001882 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239001883 MraW methylase family; Region: Methyltransf_5; cl17771 907239001884 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 907239001885 Uncharacterized conserved protein [Function unknown]; Region: COG1912 907239001886 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239001887 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 907239001888 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 907239001889 Fic family protein [Function unknown]; Region: COG3177 907239001890 Fic/DOC family; Region: Fic; pfam02661 907239001891 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 907239001892 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 907239001893 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 907239001894 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 907239001895 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 907239001896 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 907239001897 Walker A/P-loop; other site 907239001898 ATP binding site [chemical binding]; other site 907239001899 Q-loop/lid; other site 907239001900 ABC transporter signature motif; other site 907239001901 Walker B; other site 907239001902 D-loop; other site 907239001903 H-loop/switch region; other site 907239001904 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 907239001905 DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]; Region: DnaX; COG2812 907239001906 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 907239001907 Walker A motif; other site 907239001908 ATP binding site [chemical binding]; other site 907239001909 Walker B motif; other site 907239001910 arginine finger; other site 907239001911 L-lysine exporter; Region: 2a75; TIGR00948 907239001912 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 907239001913 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 907239001914 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 907239001915 active site 907239001916 homodimer interface [polypeptide binding]; other site 907239001917 homotetramer interface [polypeptide binding]; other site 907239001918 anaerobic c4-dicarboxylate membrane transporter family protein; Region: Dcu; TIGR00770 907239001919 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 907239001920 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239001921 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 907239001922 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 907239001923 FMN binding site [chemical binding]; other site 907239001924 active site 907239001925 catalytic residues [active] 907239001926 substrate binding site [chemical binding]; other site 907239001927 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 907239001928 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 907239001929 Ligand Binding Site [chemical binding]; other site 907239001930 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 907239001931 G1 box; other site 907239001932 GTP/Mg2+ binding site [chemical binding]; other site 907239001933 G2 box; other site 907239001934 Switch I region; other site 907239001935 G3 box; other site 907239001936 Switch II region; other site 907239001937 G4 box; other site 907239001938 G5 box; other site 907239001939 AAA domain; Region: AAA_21; pfam13304 907239001940 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 907239001941 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 907239001942 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 907239001943 FeS/SAM binding site; other site 907239001944 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 907239001945 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 907239001946 active site 907239001947 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 907239001948 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 907239001949 catalytic residue [active] 907239001950 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 907239001951 tetramer interfaces [polypeptide binding]; other site 907239001952 binuclear metal-binding site [ion binding]; other site 907239001953 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 907239001954 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 907239001955 ATP-grasp domain; Region: ATP-grasp_4; cl17255 907239001956 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 907239001957 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 907239001958 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 907239001959 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 907239001960 nucleotide binding site/active site [active] 907239001961 HIT family signature motif; other site 907239001962 catalytic residue [active] 907239001963 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 907239001964 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 907239001965 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 907239001966 active site 907239001967 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 907239001968 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 907239001969 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 907239001970 RNA binding surface [nucleotide binding]; other site 907239001971 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 907239001972 active site 907239001973 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 907239001974 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 907239001975 Interdomain contacts; other site 907239001976 Cytokine receptor motif; other site 907239001977 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 907239001978 Interdomain contacts; other site 907239001979 Cytokine receptor motif; other site 907239001980 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 907239001981 Interdomain contacts; other site 907239001982 Cytokine receptor motif; other site 907239001983 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 907239001984 S-adenosylmethionine binding site [chemical binding]; other site 907239001985 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 907239001986 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 907239001987 Walker A/P-loop; other site 907239001988 ATP binding site [chemical binding]; other site 907239001989 Q-loop/lid; other site 907239001990 ABC transporter signature motif; other site 907239001991 Walker B; other site 907239001992 D-loop; other site 907239001993 H-loop/switch region; other site 907239001994 potential frameshift: common BLAST hit: gi|108563159|ref|YP_627475.1| cell division membrane protein 907239001995 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 907239001996 Peptidase family M23; Region: Peptidase_M23; pfam01551 907239001997 flagellar protein FlaG; Provisional; Region: PRK08452 907239001998 flagellar capping protein; Validated; Region: fliD; PRK08453 907239001999 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 907239002000 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 907239002001 flagellar biosynthetic protein FliS; Region: fliS; TIGR00208 907239002002 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 907239002003 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 907239002004 putative ATP binding site [chemical binding]; other site 907239002005 putative substrate interface [chemical binding]; other site 907239002006 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 907239002007 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 907239002008 putative active site; other site 907239002009 catalytic triad [active] 907239002010 putative dimer interface [polypeptide binding]; other site 907239002011 Predicted permease [General function prediction only]; Region: COG2056 907239002012 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 907239002013 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 907239002014 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 907239002015 putative efflux protein, MATE family; Region: matE; TIGR00797 907239002016 phosphodiesterase; Provisional; Region: PRK12704 907239002017 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 907239002018 nucleic acid binding region [nucleotide binding]; other site 907239002019 G-X-X-G motif; other site 907239002020 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 907239002021 Zn2+ binding site [ion binding]; other site 907239002022 Mg2+ binding site [ion binding]; other site 907239002023 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 907239002024 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 907239002025 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 907239002026 Flagellin N-methylase; Region: FliB; pfam03692 907239002027 Mu-like prophage protein [General function prediction only]; Region: COG3941 907239002028 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 907239002029 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 907239002030 FeS/SAM binding site; other site 907239002031 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 907239002032 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 907239002033 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 907239002034 GTP binding site; other site 907239002035 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 907239002036 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 907239002037 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 907239002038 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 907239002039 active site 907239002040 metal binding site [ion binding]; metal-binding site 907239002041 Nitronate monooxygenase; Region: NMO; pfam03060 907239002042 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 907239002043 FMN binding site [chemical binding]; other site 907239002044 substrate binding site [chemical binding]; other site 907239002045 putative catalytic residue [active] 907239002046 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 907239002047 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 907239002048 active site 907239002049 HIGH motif; other site 907239002050 dimer interface [polypeptide binding]; other site 907239002051 KMSKS motif; other site 907239002052 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 907239002053 RNA binding surface [nucleotide binding]; other site 907239002054 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 907239002055 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 907239002056 Zn2+ binding site [ion binding]; other site 907239002057 Mg2+ binding site [ion binding]; other site 907239002058 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 907239002059 synthetase active site [active] 907239002060 NTP binding site [chemical binding]; other site 907239002061 metal binding site [ion binding]; metal-binding site 907239002062 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 907239002063 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 907239002064 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 907239002065 putative nucleotide binding site [chemical binding]; other site 907239002066 uridine monophosphate binding site [chemical binding]; other site 907239002067 homohexameric interface [polypeptide binding]; other site 907239002068 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 907239002069 aconitate hydratase 2; Region: acnB; TIGR00117 907239002070 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 907239002071 substrate binding site [chemical binding]; other site 907239002072 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 907239002073 substrate binding site [chemical binding]; other site 907239002074 ligand binding site [chemical binding]; other site 907239002075 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 907239002076 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 907239002077 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 907239002078 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 907239002079 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 907239002080 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 907239002081 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 907239002082 nucleotide binding region [chemical binding]; other site 907239002083 ATP-binding site [chemical binding]; other site 907239002084 SEC-C motif; Region: SEC-C; pfam02810 907239002085 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 907239002086 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 907239002087 FtsX-like permease family; Region: FtsX; pfam02687 907239002088 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 907239002089 potential frameshift: common BLAST hit: gi|15645409|ref|NP_207583.1| anti-codon nuclease masking agent (prrB) 907239002090 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 907239002091 metal-binding site [ion binding] 907239002092 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 907239002093 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 907239002094 Soluble P-type ATPase [General function prediction only]; Region: COG4087 907239002095 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 907239002096 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 907239002097 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 907239002098 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 907239002099 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 907239002100 active site 907239002101 catalytic residues [active] 907239002102 metal binding site [ion binding]; metal-binding site 907239002103 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 907239002104 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 907239002105 oligomer interface [polypeptide binding]; other site 907239002106 active site residues [active] 907239002107 trigger factor; Provisional; Region: tig; PRK01490 907239002108 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 907239002109 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 907239002110 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239002111 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 907239002112 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 907239002113 trimer interface [polypeptide binding]; other site 907239002114 dimer interface [polypeptide binding]; other site 907239002115 putative active site [active] 907239002116 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 907239002117 MPT binding site; other site 907239002118 trimer interface [polypeptide binding]; other site 907239002119 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 907239002120 MoaE homodimer interface [polypeptide binding]; other site 907239002121 MoaD interaction [polypeptide binding]; other site 907239002122 active site residues [active] 907239002123 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 907239002124 MoaE interaction surface [polypeptide binding]; other site 907239002125 MoeB interaction surface [polypeptide binding]; other site 907239002126 thiocarboxylated glycine; other site 907239002127 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 907239002128 dimerization interface [polypeptide binding]; other site 907239002129 active site 907239002130 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 907239002131 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: ribB; TIGR00506 907239002132 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 907239002133 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 907239002134 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 907239002135 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 907239002136 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 907239002137 N-terminal plug; other site 907239002138 ligand-binding site [chemical binding]; other site 907239002139 holo-[acyl-carrier-protein] synthase; Region: acpS; TIGR00516 907239002140 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 907239002141 RNA methyltransferase, RsmD family; Region: TIGR00095 907239002142 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 907239002143 Uncharacterized conserved protein [Function unknown]; Region: COG1565 907239002144 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 907239002145 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 907239002146 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 907239002147 ATP binding site [chemical binding]; other site 907239002148 substrate interface [chemical binding]; other site 907239002149 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 907239002150 flagellar motor protein MotA; Validated; Region: PRK08456 907239002151 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 907239002152 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 907239002153 ligand binding site [chemical binding]; other site 907239002154 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 907239002155 dimer interface [polypeptide binding]; other site 907239002156 conserved gate region; other site 907239002157 ABC-ATPase subunit interface; other site 907239002158 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 907239002159 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 907239002160 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907239002161 Walker A/P-loop; other site 907239002162 ATP binding site [chemical binding]; other site 907239002163 Q-loop/lid; other site 907239002164 ABC transporter signature motif; other site 907239002165 Walker B; other site 907239002166 D-loop; other site 907239002167 H-loop/switch region; other site 907239002168 excinuclease ABC, C subunit; Region: uvrC; TIGR00194 907239002169 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 907239002170 GIY-YIG motif/motif A; other site 907239002171 active site 907239002172 catalytic site [active] 907239002173 putative DNA binding site [nucleotide binding]; other site 907239002174 metal binding site [ion binding]; metal-binding site 907239002175 UvrB/uvrC motif; Region: UVR; pfam02151 907239002176 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 907239002177 homoserine dehydrogenase; Provisional; Region: PRK06349 907239002178 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 907239002179 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 907239002180 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 907239002181 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 907239002182 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 907239002183 catalytic residues [active] 907239002184 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 907239002185 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 907239002186 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 907239002187 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 907239002188 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 907239002189 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 907239002190 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 907239002191 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 907239002192 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 907239002193 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 907239002194 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 907239002195 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 907239002196 active site 907239002197 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, A subunit; Region: gatA; TIGR00132 907239002198 indole acetimide hydrolase; Validated; Region: PRK07488 907239002199 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 907239002200 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 907239002201 CoA-binding site [chemical binding]; other site 907239002202 ATP-binding [chemical binding]; other site 907239002203 spermidine synthase; Provisional; Region: speE; PRK00536 907239002204 spermidine synthase; Provisional; Region: PRK00811 907239002205 GTP-binding protein Der; Reviewed; Region: PRK00093 907239002206 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 907239002207 G1 box; other site 907239002208 GTP/Mg2+ binding site [chemical binding]; other site 907239002209 Switch I region; other site 907239002210 G2 box; other site 907239002211 Switch II region; other site 907239002212 G3 box; other site 907239002213 G4 box; other site 907239002214 G5 box; other site 907239002215 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 907239002216 G1 box; other site 907239002217 GTP/Mg2+ binding site [chemical binding]; other site 907239002218 Switch I region; other site 907239002219 G2 box; other site 907239002220 G3 box; other site 907239002221 Switch II region; other site 907239002222 G4 box; other site 907239002223 G5 box; other site 907239002224 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 907239002225 IHF dimer interface [polypeptide binding]; other site 907239002226 IHF - DNA interface [nucleotide binding]; other site 907239002227 potential protein location (hypothetical protein HPSA_04060 [Helicobacter pylori SouthAfrica7]) that overlaps RNA (tRNA-R) 907239002228 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 907239002229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 907239002230 potential frameshift: common BLAST hit: gi|308184627|ref|YP_003928760.1| putative Outer membrane protein 907239002231 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 907239002232 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 907239002233 NAD(P) binding site [chemical binding]; other site 907239002234 homodimer interface [polypeptide binding]; other site 907239002235 substrate binding site [chemical binding]; other site 907239002236 active site 907239002237 phosphopantothenoylcysteine decarboxylase / phosphopantothenate--cysteine ligase; Region: coaBC_dfp; TIGR00521 907239002238 Flavoprotein; Region: Flavoprotein; pfam02441 907239002239 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 907239002240 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 907239002241 active site 907239002242 thiamine phosphate binding site [chemical binding]; other site 907239002243 pyrophosphate binding site [ion binding]; other site 907239002244 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 907239002245 dimer interface [polypeptide binding]; other site 907239002246 substrate binding site [chemical binding]; other site 907239002247 ATP binding site [chemical binding]; other site 907239002248 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 907239002249 substrate binding site [chemical binding]; other site 907239002250 multimerization interface [polypeptide binding]; other site 907239002251 ATP binding site [chemical binding]; other site 907239002252 potential frameshift: common BLAST hit: gi|208434759|ref|YP_002266425.1| type I restriction enzyme R protein 907239002253 HaeIII restriction endonuclease; Region: RE_HaeIII; pfam09556 907239002254 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 907239002255 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 907239002256 active site 907239002257 Protein of unknown function (DUF511); Region: DUF511; cl01114 907239002258 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 907239002259 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907239002260 Walker A/P-loop; other site 907239002261 ATP binding site [chemical binding]; other site 907239002262 Q-loop/lid; other site 907239002263 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 907239002264 ABC transporter; Region: ABC_tran_2; pfam12848 907239002265 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 907239002266 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 907239002267 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 907239002268 active site 907239002269 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 907239002270 dimer interface [polypeptide binding]; other site 907239002271 active site 907239002272 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 907239002273 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 907239002274 putative ribose interaction site [chemical binding]; other site 907239002275 putative ADP binding site [chemical binding]; other site 907239002276 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 907239002277 active site 907239002278 nucleotide binding site [chemical binding]; other site 907239002279 HIGH motif; other site 907239002280 KMSKS motif; other site 907239002281 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 907239002282 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 907239002283 NAD(P) binding site [chemical binding]; other site 907239002284 active site 907239002285 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 907239002286 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 907239002287 active site 907239002288 motif I; other site 907239002289 motif II; other site 907239002290 Uncharacterized conserved protein [Function unknown]; Region: COG2836 907239002291 pantothenate kinase; Reviewed; Region: PRK13333 907239002292 PQQ-like domain; Region: PQQ_2; pfam13360 907239002293 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 907239002294 trimer interface [polypeptide binding]; other site 907239002295 active site 907239002296 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 907239002297 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 907239002298 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 907239002299 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 907239002300 lipid-A-disaccharide synthase; Region: lpxB; TIGR00215 907239002301 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK00564 907239002302 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 907239002303 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 907239002304 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 907239002305 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 907239002306 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 907239002307 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 907239002308 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 907239002309 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 907239002310 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 907239002311 PhnA protein; Region: PhnA; pfam03831 907239002312 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 907239002313 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 907239002314 tetramer interface [polypeptide binding]; other site 907239002315 heme binding pocket [chemical binding]; other site 907239002316 NADPH binding site [chemical binding]; other site 907239002317 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 907239002318 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 907239002319 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 907239002320 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 907239002321 active site 907239002322 putative DNA-binding cleft [nucleotide binding]; other site 907239002323 dimer interface [polypeptide binding]; other site 907239002324 Uncharacterized conserved protein [Function unknown]; Region: COG1432 907239002325 LabA_like proteins; Region: LabA_like; cd06167 907239002326 putative metal binding site [ion binding]; other site 907239002327 Holliday junction DNA helicase, RuvA subunit; Region: ruvA; TIGR00084 907239002328 RuvA N terminal domain; Region: RuvA_N; pfam01330 907239002329 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 907239002330 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 907239002331 MviN-like protein; Region: MVIN; pfam03023 907239002332 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 907239002333 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 907239002334 active site 907239002335 HIGH motif; other site 907239002336 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 907239002337 KMSKS motif; other site 907239002338 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 907239002339 tRNA binding surface [nucleotide binding]; other site 907239002340 anticodon binding site; other site 907239002341 potential frameshift: common BLAST hit: gi|254779494|ref|YP_003057599.1| Vacuolating cytotoxin; putative signal peptide 907239002342 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 907239002343 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 907239002344 Ligand binding site; other site 907239002345 metal-binding site 907239002346 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 907239002347 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 907239002348 Walker A/P-loop; other site 907239002349 ATP binding site [chemical binding]; other site 907239002350 Q-loop/lid; other site 907239002351 ABC transporter signature motif; other site 907239002352 Walker B; other site 907239002353 D-loop; other site 907239002354 H-loop/switch region; other site 907239002355 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 907239002356 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 907239002357 ABC-ATPase subunit interface; other site 907239002358 dimer interface [polypeptide binding]; other site 907239002359 putative PBP binding regions; other site 907239002360 short chain dehydrogenase; Validated; Region: PRK06182 907239002361 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 907239002362 NADP binding site [chemical binding]; other site 907239002363 active site 907239002364 steroid binding site; other site 907239002365 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 907239002366 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 907239002367 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239002368 potential protein location (hypothetical protein HPSA_04355 [Helicobacter pylori SouthAfrica7]) that overlaps RNA (tRNA-Q) 907239002369 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 907239002370 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 907239002371 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 907239002372 hydrogenase accessory protein HypB; Region: hypB; TIGR00073 907239002373 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 907239002374 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 907239002375 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 907239002376 propionate/acetate kinase; Provisional; Region: PRK12379 907239002377 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 907239002378 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 907239002379 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 907239002380 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 907239002381 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 907239002382 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 907239002383 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 907239002384 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 907239002385 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 907239002386 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 907239002387 S-adenosylmethionine binding site [chemical binding]; other site 907239002388 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 907239002389 Part of AAA domain; Region: AAA_19; pfam13245 907239002390 Family description; Region: UvrD_C_2; pfam13538 907239002391 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239002392 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239002393 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 907239002394 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 907239002395 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 907239002396 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 907239002397 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 907239002398 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 907239002399 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 907239002400 ATP-grasp domain; Region: ATP-grasp_4; cl17255 907239002401 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 907239002402 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 907239002403 ATP-grasp domain; Region: ATP-grasp_4; cl17255 907239002404 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 907239002405 IMP binding site; other site 907239002406 dimer interface [polypeptide binding]; other site 907239002407 interdomain contacts; other site 907239002408 partial ornithine binding site; other site 907239002409 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 907239002410 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 907239002411 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 907239002412 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 907239002413 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 907239002414 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907239002415 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907239002416 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 907239002417 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907239002418 Autotransporter beta-domain; Region: Autotransporter; pfam03797 907239002419 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239002420 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 907239002421 active site 1 [active] 907239002422 dimer interface [polypeptide binding]; other site 907239002423 hexamer interface [polypeptide binding]; other site 907239002424 active site 2 [active] 907239002425 recombination protein RecR; Region: recR; TIGR00615 907239002426 RecR protein; Region: RecR; pfam02132 907239002427 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 907239002428 putative active site [active] 907239002429 putative metal-binding site [ion binding]; other site 907239002430 tetramer interface [polypeptide binding]; other site 907239002431 tRNA pseudouridine synthase, TruD family; Region: tRNA_TruD_broad; TIGR00094 907239002432 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 907239002433 Permutation of conserved domain; other site 907239002434 active site 907239002435 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 907239002436 heat shock protein HtpX; Provisional; Region: PRK02870 907239002437 GTP cyclohydrolase I; Region: folE; TIGR00063 907239002438 GTP cyclohydrolase I; Provisional; Region: PLN03044 907239002439 active site 907239002440 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 907239002441 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 907239002442 substrate binding pocket [chemical binding]; other site 907239002443 chain length determination region; other site 907239002444 substrate-Mg2+ binding site; other site 907239002445 catalytic residues [active] 907239002446 aspartate-rich region 1; other site 907239002447 active site lid residues [active] 907239002448 aspartate-rich region 2; other site 907239002449 Predicted acid phosphatase [General function prediction only]; Region: SurE; COG0496 907239002450 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 907239002451 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 907239002452 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 907239002453 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 907239002454 Coenzyme A binding pocket [chemical binding]; other site 907239002455 Protein of unknown function DUF262; Region: DUF262; pfam03235 907239002456 Uncharacterized conserved protein [Function unknown]; Region: COG1479 907239002457 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 907239002458 Protein of unknown function DUF262; Region: DUF262; pfam03235 907239002459 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 907239002460 dimer interface [polypeptide binding]; other site 907239002461 conserved gate region; other site 907239002462 putative PBP binding loops; other site 907239002463 ABC-ATPase subunit interface; other site 907239002464 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 907239002465 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 907239002466 substrate binding pocket [chemical binding]; other site 907239002467 membrane-bound complex binding site; other site 907239002468 hinge residues; other site 907239002469 alanine racemase; Region: alr; TIGR00492 907239002470 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 907239002471 active site 907239002472 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 907239002473 dimer interface [polypeptide binding]; other site 907239002474 substrate binding site [chemical binding]; other site 907239002475 catalytic residues [active] 907239002476 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 907239002477 amino acid carrier protein; Region: agcS; TIGR00835 907239002478 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 907239002479 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 907239002480 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 907239002481 homotrimer interaction site [polypeptide binding]; other site 907239002482 putative active site [active] 907239002483 TRL-like protein family; Region: TRL; pfam13146 907239002484 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 907239002485 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 907239002486 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 907239002487 active site 907239002488 DNA binding site [nucleotide binding] 907239002489 Int/Topo IB signature motif; other site 907239002490 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 907239002491 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 907239002492 Methyltransferase domain; Region: Methyltransf_26; pfam13659 907239002493 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 907239002494 DEAD-like helicases superfamily; Region: DEXDc; smart00487 907239002495 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 907239002496 helicase superfamily c-terminal domain; Region: HELICc; smart00490 907239002497 nucleotide binding region [chemical binding]; other site 907239002498 ATP-binding site [chemical binding]; other site 907239002499 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 907239002500 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 907239002501 P-loop; other site 907239002502 Magnesium ion binding site [ion binding]; other site 907239002503 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 907239002504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 907239002505 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 907239002506 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 907239002507 Walker A motif; other site 907239002508 ATP binding site [chemical binding]; other site 907239002509 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 907239002510 Walker B motif; other site 907239002511 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 907239002512 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 907239002513 Walker A motif; other site 907239002514 hexamer interface [polypeptide binding]; other site 907239002515 ATP binding site [chemical binding]; other site 907239002516 Walker B motif; other site 907239002517 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 907239002518 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 907239002519 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 907239002520 VirB7 interaction site; other site 907239002521 VirB8 protein; Region: VirB8; cl01500 907239002522 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 907239002523 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 907239002524 active site 907239002525 interdomain interaction site; other site 907239002526 putative metal-binding site [ion binding]; other site 907239002527 nucleotide binding site [chemical binding]; other site 907239002528 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 907239002529 domain I; other site 907239002530 DNA binding groove [nucleotide binding] 907239002531 phosphate binding site [ion binding]; other site 907239002532 domain II; other site 907239002533 domain III; other site 907239002534 nucleotide binding site [chemical binding]; other site 907239002535 catalytic site [active] 907239002536 domain IV; other site 907239002537 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 907239002538 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 907239002539 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 907239002540 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 907239002541 Toprim-like; Region: Toprim_2; pfam13155 907239002542 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 907239002543 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 907239002544 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 907239002545 putative recombination protein RecO; Provisional; Region: PRK13908 907239002546 competence/damage-inducible protein CinA C-terminal domain; Region: cinA_cterm; TIGR00199 907239002547 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 907239002548 dimer interface [polypeptide binding]; other site 907239002549 FMN binding site [chemical binding]; other site 907239002550 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 907239002551 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 907239002552 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 907239002553 active site 907239002554 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 907239002555 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 907239002556 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 907239002557 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 907239002558 Putative zinc ribbon domain; Region: DUF164; pfam02591 907239002559 dinuclear metal center protein, YbgI/SA1388 family; Region: YbgI_SA1388; TIGR00486 907239002560 Uncharacterized conserved protein [Function unknown]; Region: COG0327 907239002561 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 907239002562 dimer interface [polypeptide binding]; other site 907239002563 motif 1; other site 907239002564 active site 907239002565 motif 2; other site 907239002566 motif 3; other site 907239002567 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 907239002568 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 907239002569 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 907239002570 potential frameshift: common BLAST hit: gi|254779561|ref|YP_003057667.1| ATPase 907239002571 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 907239002572 Dynamin family; Region: Dynamin_N; pfam00350 907239002573 G1 box; other site 907239002574 GTP/Mg2+ binding site [chemical binding]; other site 907239002575 G2 box; other site 907239002576 Switch I region; other site 907239002577 G3 box; other site 907239002578 Switch II region; other site 907239002579 G4 box; other site 907239002580 G5 box; other site 907239002581 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 907239002582 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 907239002583 G1 box; other site 907239002584 GTP/Mg2+ binding site [chemical binding]; other site 907239002585 G2 box; other site 907239002586 Switch I region; other site 907239002587 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 907239002588 G3 box; other site 907239002589 Switch II region; other site 907239002590 G4 box; other site 907239002591 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 907239002592 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 907239002593 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 907239002594 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 907239002595 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 907239002596 Outer membrane efflux protein; Region: OEP; pfam02321 907239002597 Outer membrane efflux protein; Region: OEP; pfam02321 907239002598 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 907239002599 phosphoglyceromutase; Provisional; Region: PRK05434 907239002600 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 907239002601 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, C subunit; Region: gatC; TIGR00135 907239002602 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 907239002603 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 907239002604 inhibitor-cofactor binding pocket; inhibition site 907239002605 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907239002606 catalytic residue [active] 907239002607 SurA N-terminal domain; Region: SurA_N_3; cl07813 907239002608 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 907239002609 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 907239002610 cell division protein FtsA; Region: ftsA; TIGR01174 907239002611 Cell division protein FtsA; Region: FtsA; smart00842 907239002612 Cell division protein FtsA; Region: FtsA; pfam14450 907239002613 cell division protein FtsZ; Validated; Region: PRK09330 907239002614 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 907239002615 nucleotide binding site [chemical binding]; other site 907239002616 SulA interaction site; other site 907239002617 Uncharacterized conserved protein [Function unknown]; Region: COG1479 907239002618 Protein of unknown function DUF262; Region: DUF262; pfam03235 907239002619 Protein of unknown function DUF262; Region: DUF262; pfam03235 907239002620 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 907239002621 Mechanosensitive ion channel; Region: MS_channel; pfam00924 907239002622 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 907239002623 Uncharacterized conserved protein [Function unknown]; Region: COG1479 907239002624 Protein of unknown function DUF262; Region: DUF262; pfam03235 907239002625 Protein of unknown function DUF262; Region: DUF262; pfam03235 907239002626 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 907239002627 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 907239002628 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 907239002629 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 907239002630 active site 907239002631 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 907239002632 catalytic residues [active] 907239002633 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 907239002634 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 907239002635 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 907239002636 putative ADP-binding pocket [chemical binding]; other site 907239002637 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 907239002638 active site 2 [active] 907239002639 active site 1 [active] 907239002640 Methyltransferase domain; Region: Methyltransf_23; pfam13489 907239002641 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 907239002642 S-adenosylmethionine binding site [chemical binding]; other site 907239002643 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 907239002644 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 907239002645 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 907239002646 active site 907239002647 HIGH motif; other site 907239002648 KMSKS motif; other site 907239002649 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 907239002650 anticodon binding site; other site 907239002651 tRNA binding surface [nucleotide binding]; other site 907239002652 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 907239002653 dimer interface [polypeptide binding]; other site 907239002654 putative tRNA-binding site [nucleotide binding]; other site 907239002655 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 907239002656 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 907239002657 S-adenosylmethionine binding site [chemical binding]; other site 907239002658 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 907239002659 Mechanosensitive ion channel; Region: MS_channel; pfam00924 907239002660 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 907239002661 GMP synthase; Reviewed; Region: guaA; PRK00074 907239002662 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 907239002663 AMP/PPi binding site [chemical binding]; other site 907239002664 candidate oxyanion hole; other site 907239002665 catalytic triad [active] 907239002666 potential glutamine specificity residues [chemical binding]; other site 907239002667 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 907239002668 ATP Binding subdomain [chemical binding]; other site 907239002669 Ligand Binding sites [chemical binding]; other site 907239002670 Dimerization subdomain; other site 907239002671 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 907239002672 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 907239002673 molybdopterin cofactor binding site [chemical binding]; other site 907239002674 substrate binding site [chemical binding]; other site 907239002675 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 907239002676 molybdopterin cofactor binding site; other site 907239002677 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 907239002678 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 907239002679 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 907239002680 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 907239002681 catalytic residue [active] 907239002682 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 907239002683 nucleotide binding site/active site [active] 907239002684 HIT family signature motif; other site 907239002685 catalytic residue [active] 907239002686 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 907239002687 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 907239002688 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 907239002689 dimer interface [polypeptide binding]; other site 907239002690 motif 1; other site 907239002691 active site 907239002692 motif 2; other site 907239002693 motif 3; other site 907239002694 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 907239002695 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 907239002696 putative tRNA-binding site [nucleotide binding]; other site 907239002697 tRNA synthetase B5 domain; Region: B5; smart00874 907239002698 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 907239002699 dimer interface [polypeptide binding]; other site 907239002700 motif 1; other site 907239002701 motif 3; other site 907239002702 motif 2; other site 907239002703 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 907239002704 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 907239002705 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 907239002706 hinge; other site 907239002707 active site 907239002708 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 907239002709 LytB protein; Region: LYTB; pfam02401 907239002710 ribosomal protein S1; Region: rpsA; TIGR00717 907239002711 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 907239002712 RNA binding site [nucleotide binding]; other site 907239002713 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 907239002714 RNA binding site [nucleotide binding]; other site 907239002715 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 907239002716 RNA binding site [nucleotide binding]; other site 907239002717 S1 RNA binding domain; Region: S1; pfam00575 907239002718 RNA binding site [nucleotide binding]; other site 907239002719 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 907239002720 RNA binding site [nucleotide binding]; other site 907239002721 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 907239002722 RNA binding site [nucleotide binding]; other site 907239002723 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 907239002724 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 907239002725 ligand binding site [chemical binding]; other site 907239002726 NAD binding site [chemical binding]; other site 907239002727 dimerization interface [polypeptide binding]; other site 907239002728 catalytic site [active] 907239002729 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 907239002730 putative L-serine binding site [chemical binding]; other site 907239002731 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 907239002732 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 907239002733 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 907239002734 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 907239002735 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 907239002736 catalytic residue [active] 907239002737 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 907239002738 putative active site [active] 907239002739 putative metal binding site [ion binding]; other site 907239002740 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 907239002741 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 907239002742 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 907239002743 active site 907239002744 phosphorylation site [posttranslational modification] 907239002745 intermolecular recognition site; other site 907239002746 dimerization interface [polypeptide binding]; other site 907239002747 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 907239002748 putative binding surface; other site 907239002749 active site 907239002750 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 907239002751 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 907239002752 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 907239002753 ATP binding site [chemical binding]; other site 907239002754 Mg2+ binding site [ion binding]; other site 907239002755 G-X-G motif; other site 907239002756 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 907239002757 Response regulator receiver domain; Region: Response_reg; pfam00072 907239002758 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 907239002759 active site 907239002760 phosphorylation site [posttranslational modification] 907239002761 intermolecular recognition site; other site 907239002762 dimerization interface [polypeptide binding]; other site 907239002763 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 907239002764 putative CheA interaction surface; other site 907239002765 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 907239002766 dimer interface [polypeptide binding]; other site 907239002767 catalytic triad [active] 907239002768 peroxidatic and resolving cysteines [active] 907239002769 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 907239002770 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 907239002771 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 907239002772 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 907239002773 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 907239002774 S-adenosylmethionine binding site [chemical binding]; other site 907239002775 primosome assembly protein PriA; Validated; Region: PRK05580 907239002776 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 907239002777 ATP binding site [chemical binding]; other site 907239002778 putative Mg++ binding site [ion binding]; other site 907239002779 helicase superfamily c-terminal domain; Region: HELICc; smart00490 907239002780 Sporulation related domain; Region: SPOR; pfam05036 907239002781 Peptidase family M48; Region: Peptidase_M48; pfam01435 907239002782 HemK family putative methylases; Region: hemK_fam; TIGR00536 907239002783 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 907239002784 glutamate dehydrogenase; Provisional; Region: PRK09414 907239002785 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 907239002786 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 907239002787 NAD(P) binding site [chemical binding]; other site 907239002788 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 907239002789 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 907239002790 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 907239002791 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 907239002792 catalytic residues [active] 907239002793 ferrochelatase; Region: hemH; TIGR00109 907239002794 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 907239002795 C-terminal domain interface [polypeptide binding]; other site 907239002796 active site 907239002797 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 907239002798 active site 907239002799 N-terminal domain interface [polypeptide binding]; other site 907239002800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 907239002801 RNA methyltransferase, RsmE family; Region: TIGR00046 907239002802 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239002803 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 907239002804 trimer interface [polypeptide binding]; other site 907239002805 active site 907239002806 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 907239002807 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 907239002808 carboxyltransferase (CT) interaction site; other site 907239002809 biotinylation site [posttranslational modification]; other site 907239002810 biotin carboxylase; Validated; Region: PRK08462 907239002811 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 907239002812 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 907239002813 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 907239002814 potential frameshift: common BLAST hit: gi|308184824|ref|YP_003928957.1| putative adenine methyltransferase 907239002815 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 907239002816 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 907239002817 inhibitor-cofactor binding pocket; inhibition site 907239002818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907239002819 catalytic residue [active] 907239002820 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 907239002821 dimer interface [polypeptide binding]; other site 907239002822 putative radical transfer pathway; other site 907239002823 diiron center [ion binding]; other site 907239002824 tyrosyl radical; other site 907239002825 protein-L-isoaspartate(D-aspartate) O-methyltransferase; Region: pimt; TIGR00080 907239002826 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 907239002827 S-adenosylmethionine binding site [chemical binding]; other site 907239002828 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 907239002829 Predicted permeases [General function prediction only]; Region: COG0795 907239002830 tRNA pseudouridine(38-40) synthase; Region: hisT_truA; TIGR00071 907239002831 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 907239002832 dimerization interface 3.5A [polypeptide binding]; other site 907239002833 active site 907239002834 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 907239002835 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 907239002836 NAD binding site [chemical binding]; other site 907239002837 homodimer interface [polypeptide binding]; other site 907239002838 active site 907239002839 substrate binding site [chemical binding]; other site 907239002840 potential protein location (hypothetical protein HPSA_05310 [Helicobacter pylori SouthAfrica7]) that overlaps RNA (tRNA-I) 907239002841 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 907239002842 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 907239002843 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 907239002844 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 907239002845 putative NAD(P) binding site [chemical binding]; other site 907239002846 homodimer interface [polypeptide binding]; other site 907239002847 homotetramer interface [polypeptide binding]; other site 907239002848 active site 907239002849 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 907239002850 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 907239002851 binding surface 907239002852 TPR motif; other site 907239002853 Sel1-like repeats; Region: SEL1; smart00671 907239002854 Sel1-like repeats; Region: SEL1; smart00671 907239002855 Sel1-like repeats; Region: SEL1; smart00671 907239002856 Entner-Doudoroff aldolase; Region: eda; TIGR01182 907239002857 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 907239002858 active site 907239002859 intersubunit interface [polypeptide binding]; other site 907239002860 catalytic residue [active] 907239002861 phosphogluconate dehydratase; Validated; Region: PRK09054 907239002862 6-phosphogluconate dehydratase; Region: edd; TIGR01196 907239002863 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 907239002864 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 907239002865 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 907239002866 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 907239002867 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 907239002868 putative active site [active] 907239002869 glucokinase; Provisional; Region: glk; PRK00292 907239002870 glucokinase, proteobacterial type; Region: glk; TIGR00749 907239002871 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 907239002872 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 907239002873 putative NAD(P) binding site [chemical binding]; other site 907239002874 putative substrate binding site [chemical binding]; other site 907239002875 catalytic Zn binding site [ion binding]; other site 907239002876 structural Zn binding site [ion binding]; other site 907239002877 dimer interface [polypeptide binding]; other site 907239002878 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 907239002879 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 907239002880 active site 907239002881 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 907239002882 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 907239002883 active site 907239002884 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239002885 pyruvate flavodoxin oxidoreductase subunit gamma; Validated; Region: PRK05844 907239002886 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 907239002887 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 907239002888 4Fe-4S binding domain; Region: Fer4; pfam00037 907239002889 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 907239002890 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 907239002891 dimer interface [polypeptide binding]; other site 907239002892 PYR/PP interface [polypeptide binding]; other site 907239002893 TPP binding site [chemical binding]; other site 907239002894 substrate binding site [chemical binding]; other site 907239002895 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 907239002896 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 907239002897 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 907239002898 TPP-binding site [chemical binding]; other site 907239002899 putative dimer interface [polypeptide binding]; other site 907239002900 adenylosuccinate lyase; Provisional; Region: PRK08470 907239002901 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 907239002902 tetramer interface [polypeptide binding]; other site 907239002903 active site 907239002904 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 907239002905 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239002906 excinuclease ABC subunit B; Provisional; Region: PRK05298 907239002907 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 907239002908 ATP binding site [chemical binding]; other site 907239002909 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 907239002910 putative Mg++ binding site [ion binding]; other site 907239002911 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 907239002912 nucleotide binding region [chemical binding]; other site 907239002913 ATP-binding site [chemical binding]; other site 907239002914 Ultra-violet resistance protein B; Region: UvrB; pfam12344 907239002915 UvrB/uvrC motif; Region: UVR; pfam02151 907239002916 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 907239002917 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 907239002918 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 907239002919 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 907239002920 binding surface 907239002921 TPR motif; other site 907239002922 Sel1-like repeats; Region: SEL1; smart00671 907239002923 Sel1-like repeats; Region: SEL1; smart00671 907239002924 Sel1-like repeats; Region: SEL1; smart00671 907239002925 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 907239002926 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 907239002927 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 907239002928 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 907239002929 R.HinP1I restriction endonuclease; Region: R-HINP1I; pfam11463 907239002930 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 907239002931 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 907239002932 cofactor binding site; other site 907239002933 DNA binding site [nucleotide binding] 907239002934 substrate interaction site [chemical binding]; other site 907239002935 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 907239002936 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 907239002937 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 907239002938 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 907239002939 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 907239002940 ligand binding site [chemical binding]; other site 907239002941 translocation protein TolB; Provisional; Region: tolB; PRK04043 907239002942 TolB amino-terminal domain; Region: TolB_N; pfam04052 907239002943 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 907239002944 TonB C terminal; Region: TonB_2; pfam13103 907239002945 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 907239002946 TolR protein; Region: tolR; TIGR02801 907239002947 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 907239002948 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 907239002949 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 907239002950 gamma subunit interface [polypeptide binding]; other site 907239002951 epsilon subunit interface [polypeptide binding]; other site 907239002952 LBP interface [polypeptide binding]; other site 907239002953 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 907239002954 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 907239002955 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 907239002956 alpha subunit interaction interface [polypeptide binding]; other site 907239002957 Walker A motif; other site 907239002958 ATP binding site [chemical binding]; other site 907239002959 Walker B motif; other site 907239002960 inhibitor binding site; inhibition site 907239002961 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 907239002962 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 907239002963 core domain interface [polypeptide binding]; other site 907239002964 delta subunit interface [polypeptide binding]; other site 907239002965 epsilon subunit interface [polypeptide binding]; other site 907239002966 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 907239002967 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 907239002968 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 907239002969 beta subunit interaction interface [polypeptide binding]; other site 907239002970 Walker A motif; other site 907239002971 ATP binding site [chemical binding]; other site 907239002972 Walker B motif; other site 907239002973 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 907239002974 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 907239002975 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 907239002976 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 907239002977 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 907239002978 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 907239002979 ParB-like nuclease domain; Region: ParB; smart00470 907239002980 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 907239002981 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 907239002982 P-loop; other site 907239002983 Magnesium ion binding site [ion binding]; other site 907239002984 biotin--protein ligase; Provisional; Region: PRK08477 907239002985 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 907239002986 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 907239002987 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 907239002988 putative active site [active] 907239002989 substrate binding site [chemical binding]; other site 907239002990 putative cosubstrate binding site; other site 907239002991 catalytic site [active] 907239002992 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 907239002993 substrate binding site [chemical binding]; other site 907239002994 PHP-associated; Region: PHP_C; pfam13263 907239002995 AAA domain; Region: AAA_23; pfam13476 907239002996 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907239002997 Walker A/P-loop; other site 907239002998 ATP binding site [chemical binding]; other site 907239002999 Q-loop/lid; other site 907239003000 Gas vesicle synthesis protein GvpL/GvpF; Region: GvpL_GvpF; pfam06386 907239003001 AAA domain; Region: AAA_21; pfam13304 907239003002 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907239003003 ABC transporter signature motif; other site 907239003004 Walker B; other site 907239003005 D-loop; other site 907239003006 H-loop/switch region; other site 907239003007 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 907239003008 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 907239003009 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 907239003010 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 907239003011 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 907239003012 RimM N-terminal domain; Region: RimM; pfam01782 907239003013 PRC-barrel domain; Region: PRC; pfam05239 907239003014 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 907239003015 KH domain; Region: KH_4; pfam13083 907239003016 G-X-X-G motif; other site 907239003017 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 907239003018 signal recognition particle protein; Provisional; Region: PRK10867 907239003019 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 907239003020 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 907239003021 P loop; other site 907239003022 GTP binding site [chemical binding]; other site 907239003023 Signal peptide binding domain; Region: SRP_SPB; pfam02978 907239003024 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 907239003025 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 907239003026 active site 907239003027 HIGH motif; other site 907239003028 nucleotide binding site [chemical binding]; other site 907239003029 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 907239003030 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 907239003031 active site 907239003032 KMSKS motif; other site 907239003033 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 907239003034 anticodon binding site; other site 907239003035 flagellar assembly protein FliW; Provisional; Region: PRK13283 907239003036 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 907239003037 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 907239003038 active site 907239003039 homodimer interface [polypeptide binding]; other site 907239003040 Domain of unknown function (DUF243); Region: DUF243; cl11612 907239003041 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239003042 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239003043 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 907239003044 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 907239003045 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 907239003046 Fic/DOC family; Region: Fic; cl00960 907239003047 metal-binding heat shock protein; Provisional; Region: PRK00016 907239003048 flavodoxin FldA; Validated; Region: PRK09267 907239003049 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 907239003050 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 907239003051 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 907239003052 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 907239003053 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 907239003054 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 907239003055 Major Facilitator Superfamily; Region: MFS_1; pfam07690 907239003056 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 907239003057 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 907239003058 active site 907239003059 dimer interface [polypeptide binding]; other site 907239003060 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 907239003061 dimer interface [polypeptide binding]; other site 907239003062 active site 907239003063 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 907239003064 carbon starvation protein A; Provisional; Region: PRK15015 907239003065 Carbon starvation protein CstA; Region: CstA; pfam02554 907239003066 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 907239003067 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 907239003068 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 907239003069 dimer interface [polypeptide binding]; other site 907239003070 conserved gate region; other site 907239003071 putative PBP binding loops; other site 907239003072 ABC-ATPase subunit interface; other site 907239003073 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 907239003074 dimer interface [polypeptide binding]; other site 907239003075 conserved gate region; other site 907239003076 putative PBP binding loops; other site 907239003077 ABC-ATPase subunit interface; other site 907239003078 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 907239003079 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 907239003080 Walker A/P-loop; other site 907239003081 ATP binding site [chemical binding]; other site 907239003082 Q-loop/lid; other site 907239003083 ABC transporter signature motif; other site 907239003084 Walker B; other site 907239003085 D-loop; other site 907239003086 H-loop/switch region; other site 907239003087 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 907239003088 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 907239003089 substrate binding pocket [chemical binding]; other site 907239003090 membrane-bound complex binding site; other site 907239003091 hinge residues; other site 907239003092 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 907239003093 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 907239003094 putative substrate translocation pore; other site 907239003095 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 907239003096 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239003097 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 907239003098 S-adenosylmethionine binding site [chemical binding]; other site 907239003099 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 907239003100 GIY-YIG motif/motif A; other site 907239003101 DNA binding site [nucleotide binding] 907239003102 active site 907239003103 catalytic site [active] 907239003104 metal binding site [ion binding]; metal-binding site 907239003105 purine-nucleoside phosphorylase, family 1 (deoD); Region: deoD; TIGR00107 907239003106 phosphopentomutase; Provisional; Region: PRK05362 907239003107 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 907239003108 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 907239003109 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 907239003110 Nucleoside recognition; Region: Gate; pfam07670 907239003111 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 907239003112 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 907239003113 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 907239003114 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 907239003115 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 907239003116 putative metal binding site [ion binding]; other site 907239003117 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 907239003118 HSP70 interaction site [polypeptide binding]; other site 907239003119 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 907239003120 Major Facilitator Superfamily; Region: MFS_1; pfam07690 907239003121 putative substrate translocation pore; other site 907239003122 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 907239003123 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 907239003124 Ligand Binding Site [chemical binding]; other site 907239003125 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 907239003126 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 907239003127 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 907239003128 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 907239003129 putative arabinose transporter; Provisional; Region: PRK03545 907239003130 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 907239003131 putative substrate translocation pore; other site 907239003132 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 907239003133 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 907239003134 active site 907239003135 zinc binding site [ion binding]; other site 907239003136 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 907239003137 aspartate-semialdehyde dehydrogenase (peptidoglycan organisms); Region: asd_B; TIGR01296 907239003138 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 907239003139 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 907239003140 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 907239003141 dimer interface [polypeptide binding]; other site 907239003142 motif 1; other site 907239003143 active site 907239003144 motif 2; other site 907239003145 motif 3; other site 907239003146 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 907239003147 anticodon binding site; other site 907239003148 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 907239003149 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 907239003150 putative active site [active] 907239003151 potential frameshift: common BLAST hit: gi|308184941|ref|YP_003929074.1| aldo-ketoreductase, putative 907239003152 potential frameshift: common BLAST hit: gi|210135352|ref|YP_002301791.1| aldo-keto reductase 907239003153 elongation factor G; Reviewed; Region: PRK00007 907239003154 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 907239003155 G1 box; other site 907239003156 putative GEF interaction site [polypeptide binding]; other site 907239003157 GTP/Mg2+ binding site [chemical binding]; other site 907239003158 Switch I region; other site 907239003159 G2 box; other site 907239003160 G3 box; other site 907239003161 Switch II region; other site 907239003162 G4 box; other site 907239003163 G5 box; other site 907239003164 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 907239003165 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 907239003166 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 907239003167 30S ribosomal protein S7; Validated; Region: PRK05302 907239003168 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 907239003169 S17 interaction site [polypeptide binding]; other site 907239003170 S8 interaction site; other site 907239003171 16S rRNA interaction site [nucleotide binding]; other site 907239003172 streptomycin interaction site [chemical binding]; other site 907239003173 23S rRNA interaction site [nucleotide binding]; other site 907239003174 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 907239003175 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 907239003176 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 907239003177 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 907239003178 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 907239003179 RPB11 interaction site [polypeptide binding]; other site 907239003180 RPB12 interaction site [polypeptide binding]; other site 907239003181 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 907239003182 RPB3 interaction site [polypeptide binding]; other site 907239003183 RPB1 interaction site [polypeptide binding]; other site 907239003184 RPB11 interaction site [polypeptide binding]; other site 907239003185 RPB10 interaction site [polypeptide binding]; other site 907239003186 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 907239003187 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 907239003188 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 907239003189 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 907239003190 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 907239003191 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 907239003192 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 907239003193 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 907239003194 DNA binding site [nucleotide binding] 907239003195 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 907239003196 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 907239003197 core dimer interface [polypeptide binding]; other site 907239003198 peripheral dimer interface [polypeptide binding]; other site 907239003199 L10 interface [polypeptide binding]; other site 907239003200 L11 interface [polypeptide binding]; other site 907239003201 putative EF-Tu interaction site [polypeptide binding]; other site 907239003202 putative EF-G interaction site [polypeptide binding]; other site 907239003203 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 907239003204 23S rRNA interface [nucleotide binding]; other site 907239003205 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 907239003206 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 907239003207 mRNA/rRNA interface [nucleotide binding]; other site 907239003208 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 907239003209 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 907239003210 23S rRNA interface [nucleotide binding]; other site 907239003211 L7/L12 interface [polypeptide binding]; other site 907239003212 putative thiostrepton binding site; other site 907239003213 L25 interface [polypeptide binding]; other site 907239003214 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 907239003215 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 907239003216 putative homodimer interface [polypeptide binding]; other site 907239003217 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 907239003218 heterodimer interface [polypeptide binding]; other site 907239003219 homodimer interface [polypeptide binding]; other site 907239003220 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 907239003221 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 907239003222 elongation factor Tu; Reviewed; Region: PRK00049 907239003223 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 907239003224 G1 box; other site 907239003225 GEF interaction site [polypeptide binding]; other site 907239003226 GTP/Mg2+ binding site [chemical binding]; other site 907239003227 Switch I region; other site 907239003228 G2 box; other site 907239003229 G3 box; other site 907239003230 Switch II region; other site 907239003231 G4 box; other site 907239003232 G5 box; other site 907239003233 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 907239003234 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 907239003235 Antibiotic Binding Site [chemical binding]; other site 907239003236 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 907239003237 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907239003238 Walker A/P-loop; other site 907239003239 ATP binding site [chemical binding]; other site 907239003240 Q-loop/lid; other site 907239003241 ABC transporter signature motif; other site 907239003242 Walker B; other site 907239003243 D-loop; other site 907239003244 H-loop/switch region; other site 907239003245 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 907239003246 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 907239003247 potential protein location (hypothetical protein HPSA_05945 [Helicobacter pylori SouthAfrica7]) that overlaps RNA (tRNA-L) 907239003248 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 907239003249 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 907239003250 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 907239003251 oligomer interface [polypeptide binding]; other site 907239003252 RNA binding site [nucleotide binding]; other site 907239003253 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 907239003254 oligomer interface [polypeptide binding]; other site 907239003255 RNA binding site [nucleotide binding]; other site 907239003256 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 907239003257 putative nucleic acid binding region [nucleotide binding]; other site 907239003258 G-X-X-G motif; other site 907239003259 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 907239003260 RNA binding site [nucleotide binding]; other site 907239003261 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG1926 907239003262 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 907239003263 Organic solvent tolerance protein; Region: OstA_C; pfam04453 907239003264 Predicted membrane protein/domain [Function unknown]; Region: COG1714 907239003265 phosphoribosylamine--glycine ligase; Region: purD; TIGR00877 907239003266 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 907239003267 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 907239003268 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 907239003269 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 907239003270 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 907239003271 Walker A/P-loop; other site 907239003272 ATP binding site [chemical binding]; other site 907239003273 Q-loop/lid; other site 907239003274 ABC transporter signature motif; other site 907239003275 Walker B; other site 907239003276 D-loop; other site 907239003277 H-loop/switch region; other site 907239003278 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 907239003279 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 907239003280 catalytic residue [active] 907239003281 putative FPP diphosphate binding site; other site 907239003282 putative FPP binding hydrophobic cleft; other site 907239003283 dimer interface [polypeptide binding]; other site 907239003284 putative IPP diphosphate binding site; other site 907239003285 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 907239003286 FAD binding domain; Region: FAD_binding_4; pfam01565 907239003287 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 907239003288 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 907239003289 active site residue [active] 907239003290 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 907239003291 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 907239003292 active site 907239003293 camphor resistance protein CrcB; Provisional; Region: PRK14204 907239003294 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 907239003295 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 907239003296 FeS/SAM binding site; other site 907239003297 Cytochrome c553 [Energy production and conversion]; Region: COG2863 907239003298 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 907239003299 putative active site [active] 907239003300 Ap4A binding site [chemical binding]; other site 907239003301 nudix motif; other site 907239003302 putative metal binding site [ion binding]; other site 907239003303 aspartate kinase; Reviewed; Region: PRK06635 907239003304 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 907239003305 putative nucleotide binding site [chemical binding]; other site 907239003306 putative catalytic residues [active] 907239003307 putative Mg ion binding site [ion binding]; other site 907239003308 putative aspartate binding site [chemical binding]; other site 907239003309 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 907239003310 putative allosteric regulatory site; other site 907239003311 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 907239003312 putative allosteric regulatory residue; other site 907239003313 DNA replication regulator; Region: HobA; pfam12163 907239003314 DNA polymerase III subunit delta'; Validated; Region: PRK08485 907239003315 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 907239003316 dihydropteroate synthase; Region: DHPS; TIGR01496 907239003317 substrate binding pocket [chemical binding]; other site 907239003318 dimer interface [polypeptide binding]; other site 907239003319 inhibitor binding site; inhibition site 907239003320 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 907239003321 EamA-like transporter family; Region: EamA; pfam00892 907239003322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2952 907239003323 Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarA; COG0505 907239003324 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 907239003325 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 907239003326 catalytic site [active] 907239003327 subunit interface [polypeptide binding]; other site 907239003328 formamidase; Provisional; Region: amiF; PRK13287 907239003329 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 907239003330 multimer interface [polypeptide binding]; other site 907239003331 active site 907239003332 catalytic triad [active] 907239003333 dimer interface [polypeptide binding]; other site 907239003334 Maf-like protein; Reviewed; Region: PRK04056 907239003335 putative active site [active] 907239003336 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 907239003337 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 907239003338 motif 1; other site 907239003339 active site 907239003340 motif 2; other site 907239003341 motif 3; other site 907239003342 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 907239003343 DHHA1 domain; Region: DHHA1; pfam02272 907239003344 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 907239003345 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239003346 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 907239003347 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 907239003348 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 907239003349 dimer interface [polypeptide binding]; other site 907239003350 ssDNA binding site [nucleotide binding]; other site 907239003351 tetramer (dimer of dimers) interface [polypeptide binding]; other site 907239003352 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 907239003353 DNA polymerase III subunit delta; Validated; Region: PRK08487 907239003354 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 907239003355 Exoribonuclease R [Transcription]; Region: VacB; COG0557 907239003356 RNB domain; Region: RNB; pfam00773 907239003357 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 907239003358 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 907239003359 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 907239003360 shikimate binding site; other site 907239003361 NAD(P) binding site [chemical binding]; other site 907239003362 Bacterial SH3 domain; Region: SH3_3; pfam08239 907239003363 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 907239003364 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 907239003365 dimer interface [polypeptide binding]; other site 907239003366 conserved gate region; other site 907239003367 putative PBP binding loops; other site 907239003368 ABC-ATPase subunit interface; other site 907239003369 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 907239003370 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 907239003371 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 907239003372 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 907239003373 active site 907239003374 HIGH motif; other site 907239003375 dimer interface [polypeptide binding]; other site 907239003376 KMSKS motif; other site 907239003377 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 907239003378 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 907239003379 S-adenosylmethionine binding site [chemical binding]; other site 907239003380 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 907239003381 ribosome recycling factor; Reviewed; Region: frr; PRK00083 907239003382 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 907239003383 hinge region; other site 907239003384 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 907239003385 active site 907239003386 RDD family; Region: RDD; pfam06271 907239003387 NAD-dependent deacetylase; Provisional; Region: PRK00481 907239003388 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 907239003389 NAD+ binding site [chemical binding]; other site 907239003390 substrate binding site [chemical binding]; other site 907239003391 Zn binding site [ion binding]; other site 907239003392 NADH dehydrogenase subunit A; Validated; Region: PRK08489 907239003393 NADH dehydrogenase subunit B; Validated; Region: PRK06411 907239003394 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 907239003395 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 907239003396 NADH dehydrogenase subunit D; Validated; Region: PRK06075 907239003397 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 907239003398 NADH dehydrogenase subunit G; Validated; Region: PRK08493 907239003399 NADH dehydrogenase subunit G; Validated; Region: PRK08493 907239003400 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 907239003401 catalytic loop [active] 907239003402 iron binding site [ion binding]; other site 907239003403 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 907239003404 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 907239003405 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 907239003406 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 907239003407 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 907239003408 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 907239003409 4Fe-4S binding domain; Region: Fer4; cl02805 907239003410 4Fe-4S binding domain; Region: Fer4; pfam00037 907239003411 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 907239003412 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 907239003413 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 907239003414 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 907239003415 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 907239003416 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 907239003417 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 907239003418 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 907239003419 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 907239003420 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 907239003421 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 907239003422 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 907239003423 active site 907239003424 substrate binding site [chemical binding]; other site 907239003425 metal binding site [ion binding]; metal-binding site 907239003426 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 907239003427 substrate binding site [chemical binding]; other site 907239003428 active site 907239003429 catalytic residues [active] 907239003430 heterodimer interface [polypeptide binding]; other site 907239003431 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 907239003432 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 907239003433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907239003434 catalytic residue [active] 907239003435 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 907239003436 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 907239003437 active site 907239003438 ribulose/triose binding site [chemical binding]; other site 907239003439 phosphate binding site [ion binding]; other site 907239003440 substrate (anthranilate) binding pocket [chemical binding]; other site 907239003441 product (indole) binding pocket [chemical binding]; other site 907239003442 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 907239003443 active site 907239003444 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 907239003445 anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245 907239003446 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 907239003447 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 907239003448 Glutamine amidotransferase class-I; Region: GATase; pfam00117 907239003449 glutamine binding [chemical binding]; other site 907239003450 catalytic triad [active] 907239003451 anthranilate synthase component I; Provisional; Region: PRK13564 907239003452 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 907239003453 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 907239003454 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 907239003455 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 907239003456 putative active site [active] 907239003457 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 907239003458 active site 907239003459 motif I; other site 907239003460 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 907239003461 motif II; other site 907239003462 Uncharacterized conserved protein [Function unknown]; Region: COG2353 907239003463 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 907239003464 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 907239003465 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 907239003466 Thiamine pyrophosphokinase; Region: TPK; cd07995 907239003467 active site 907239003468 dimerization interface [polypeptide binding]; other site 907239003469 thiamine binding site [chemical binding]; other site 907239003470 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 907239003471 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 907239003472 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 907239003473 alphaNTD homodimer interface [polypeptide binding]; other site 907239003474 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 907239003475 alphaNTD - beta interaction site [polypeptide binding]; other site 907239003476 alphaNTD - beta' interaction site [polypeptide binding]; other site 907239003477 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 907239003478 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 907239003479 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 907239003480 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 907239003481 RNA binding surface [nucleotide binding]; other site 907239003482 30S ribosomal protein S11; Validated; Region: PRK05309 907239003483 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 907239003484 30S ribosomal protein S13; Region: bact_S13; TIGR03631 907239003485 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 907239003486 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 907239003487 rRNA binding site [nucleotide binding]; other site 907239003488 predicted 30S ribosome binding site; other site 907239003489 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 907239003490 active site 907239003491 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 907239003492 SecY translocase; Region: SecY; pfam00344 907239003493 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 907239003494 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 907239003495 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 907239003496 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 907239003497 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 907239003498 23S rRNA interface [nucleotide binding]; other site 907239003499 5S rRNA interface [nucleotide binding]; other site 907239003500 L27 interface [polypeptide binding]; other site 907239003501 L5 interface [polypeptide binding]; other site 907239003502 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 907239003503 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 907239003504 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 907239003505 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 907239003506 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 907239003507 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 907239003508 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 907239003509 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 907239003510 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 907239003511 RNA binding site [nucleotide binding]; other site 907239003512 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 907239003513 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 907239003514 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 907239003515 putative translocon interaction site; other site 907239003516 23S rRNA interface [nucleotide binding]; other site 907239003517 signal recognition particle (SRP54) interaction site; other site 907239003518 L23 interface [polypeptide binding]; other site 907239003519 trigger factor interaction site; other site 907239003520 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 907239003521 23S rRNA interface [nucleotide binding]; other site 907239003522 5S rRNA interface [nucleotide binding]; other site 907239003523 putative antibiotic binding site [chemical binding]; other site 907239003524 L25 interface [polypeptide binding]; other site 907239003525 L27 interface [polypeptide binding]; other site 907239003526 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 907239003527 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 907239003528 G-X-X-G motif; other site 907239003529 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 907239003530 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 907239003531 putative translocon binding site; other site 907239003532 protein-rRNA interface [nucleotide binding]; other site 907239003533 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 907239003534 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 907239003535 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 907239003536 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 907239003537 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 907239003538 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 907239003539 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 907239003540 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 907239003541 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 907239003542 AAA domain; Region: AAA_14; pfam13173 907239003543 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 907239003544 RNA/DNA hybrid binding site [nucleotide binding]; other site 907239003545 active site 907239003546 fumarate hydratase; Reviewed; Region: fumC; PRK00485 907239003547 Class II fumarases; Region: Fumarase_classII; cd01362 907239003548 active site 907239003549 tetramer interface [polypeptide binding]; other site 907239003550 YtkA-like; Region: YtkA; pfam13115 907239003551 Outer membrane efflux protein; Region: OEP; pfam02321 907239003552 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 907239003553 HlyD family secretion protein; Region: HlyD_3; pfam13437 907239003554 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 907239003555 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 907239003556 AzlC protein; Region: AzlC; cl00570 907239003557 chaperone protein DnaJ; Provisional; Region: PRK14288 907239003558 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 907239003559 HSP70 interaction site [polypeptide binding]; other site 907239003560 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 907239003561 substrate binding site [polypeptide binding]; other site 907239003562 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 907239003563 Zn binding sites [ion binding]; other site 907239003564 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 907239003565 dimer interface [polypeptide binding]; other site 907239003566 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 907239003567 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 907239003568 Ligand Binding Site [chemical binding]; other site 907239003569 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 907239003570 HSP70 interaction site [polypeptide binding]; other site 907239003571 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 907239003572 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 907239003573 active site 907239003574 (T/H)XGH motif; other site 907239003575 nickel responsive regulator; Provisional; Region: PRK00630 907239003576 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 907239003577 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 907239003578 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 907239003579 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 907239003580 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 907239003581 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 907239003582 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 907239003583 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239003584 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 907239003585 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; pfam02086 907239003586 ICEA Protein; Region: ICEA; pfam05315 907239003587 serine O-acetyltransferase; Region: cysE; TIGR01172 907239003588 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 907239003589 trimer interface [polypeptide binding]; other site 907239003590 active site 907239003591 substrate binding site [chemical binding]; other site 907239003592 CoA binding site [chemical binding]; other site 907239003593 7-cyano-7-deazaguanine reductase; Region: QueF-II; TIGR03139 907239003594 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 907239003595 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 907239003596 IPP transferase; Region: IPPT; pfam01715 907239003597 potential frameshift: common BLAST hit: gi|109946660|ref|YP_663888.1| lipopolysaccharide biosynthesis protein 907239003598 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 907239003599 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 907239003600 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 907239003601 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 907239003602 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 907239003603 Walker A motif/ATP binding site; other site 907239003604 Walker B motif; other site 907239003605 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 907239003606 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 907239003607 ATP binding site [chemical binding]; other site 907239003608 Walker A motif; other site 907239003609 hexamer interface [polypeptide binding]; other site 907239003610 Walker B motif; other site 907239003611 potential frameshift: common BLAST hit: gi|109946734|ref|YP_663962.1| isoleucyl-tRNA synthetase 907239003612 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 907239003613 RNA binding surface [nucleotide binding]; other site 907239003614 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239003615 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 907239003616 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 907239003617 FeS/SAM binding site; other site 907239003618 KpsF/GutQ family protein; Region: kpsF; TIGR00393 907239003619 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 907239003620 putative active site [active] 907239003621 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 907239003622 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 907239003623 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 907239003624 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 907239003625 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 907239003626 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 907239003627 S-adenosylmethionine binding site [chemical binding]; other site 907239003628 formyltetrahydrofolate deformylase; Region: PurU; TIGR00655 907239003629 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 907239003630 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 907239003631 active site 907239003632 substrate binding site [chemical binding]; other site 907239003633 cosubstrate binding site; other site 907239003634 catalytic site [active] 907239003635 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 907239003636 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 907239003637 tandem repeat interface [polypeptide binding]; other site 907239003638 oligomer interface [polypeptide binding]; other site 907239003639 active site residues [active] 907239003640 TIR domain; Region: TIR_2; pfam13676 907239003641 potential frameshift: common BLAST hit: gi|15646047|ref|NP_208229.1| lipoprotein 907239003642 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 907239003643 active site 907239003644 Global regulator protein family; Region: CsrA; cl00670 907239003645 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 907239003646 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 907239003647 SmpB-tmRNA interface; other site 907239003648 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 907239003649 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 907239003650 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 907239003651 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 907239003652 Ribonuclease P; Region: Ribonuclease_P; cl00457 907239003653 hypothetical protein; Provisional; Region: PRK14374 907239003654 membrane protein insertase; Provisional; Region: PRK01318 907239003655 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 907239003656 potential frameshift: common BLAST hit: gi|298735583|ref|YP_003728106.1| spoIIIJ-associated protein 907239003657 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 907239003658 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 907239003659 trmE is a tRNA modification GTPase; Region: trmE; cd04164 907239003660 G1 box; other site 907239003661 GTP/Mg2+ binding site [chemical binding]; other site 907239003662 Switch I region; other site 907239003663 G2 box; other site 907239003664 Switch II region; other site 907239003665 G3 box; other site 907239003666 G4 box; other site 907239003667 G5 box; other site 907239003668 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 907239003669 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239003670 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239003671 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 907239003672 LPP20 lipoprotein; Region: LPP20; pfam02169 907239003673 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 907239003674 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 907239003675 catalytic residues [active] 907239003676 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 907239003677 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 907239003678 RNA binding surface [nucleotide binding]; other site 907239003679 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 907239003680 active site 907239003681 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 907239003682 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 907239003683 active site 907239003684 PHP Thumb interface [polypeptide binding]; other site 907239003685 metal binding site [ion binding]; metal-binding site 907239003686 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 907239003687 generic binding surface I; other site 907239003688 generic binding surface II; other site 907239003689 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 907239003690 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 907239003691 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 907239003692 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 907239003693 mce related protein; Region: MCE; pfam02470 907239003694 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 907239003695 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 907239003696 Walker A/P-loop; other site 907239003697 ATP binding site [chemical binding]; other site 907239003698 Q-loop/lid; other site 907239003699 ABC transporter signature motif; other site 907239003700 Walker B; other site 907239003701 D-loop; other site 907239003702 H-loop/switch region; other site 907239003703 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 907239003704 conserved hypothetical integral membrane protein; Region: TIGR00056 907239003705 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239003706 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 907239003707 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 907239003708 homodimer interface [polypeptide binding]; other site 907239003709 substrate-cofactor binding pocket; other site 907239003710 catalytic residue [active] 907239003711 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239003712 DNA polymerase I; Region: pola; TIGR00593 907239003713 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 907239003714 active site 907239003715 putative 5' ssDNA interaction site; other site 907239003716 metal binding site 3; metal-binding site 907239003717 metal binding site 1 [ion binding]; metal-binding site 907239003718 metal binding site 2 [ion binding]; metal-binding site 907239003719 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 907239003720 putative DNA binding site [nucleotide binding]; other site 907239003721 putative metal binding site [ion binding]; other site 907239003722 3'-5' exonuclease; Region: 35EXOc; smart00474 907239003723 active site 907239003724 substrate binding site [chemical binding]; other site 907239003725 catalytic site [active] 907239003726 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 907239003727 active site 907239003728 DNA binding site [nucleotide binding] 907239003729 catalytic site [active] 907239003730 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 907239003731 potential frameshift: common BLAST hit: gi|210135638|ref|YP_002302077.1| type IIS R-M system restriction enzyme 907239003732 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 907239003733 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 907239003734 thymidylate kinase; Validated; Region: tmk; PRK00698 907239003735 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 907239003736 TMP-binding site; other site 907239003737 ATP-binding site [chemical binding]; other site 907239003738 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 907239003739 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 907239003740 active site 907239003741 (T/H)XGH motif; other site 907239003742 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 907239003743 Flavoprotein; Region: Flavoprotein; pfam02441 907239003744 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 907239003745 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 907239003746 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 907239003747 Part of AAA domain; Region: AAA_19; pfam13245 907239003748 Family description; Region: UvrD_C_2; pfam13538 907239003749 Tetratricopeptide repeat; Region: TPR_16; pfam13432 907239003750 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 907239003751 binding surface 907239003752 TPR motif; other site 907239003753 seryl-tRNA synthetase; Provisional; Region: PRK05431 907239003754 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 907239003755 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 907239003756 dimer interface [polypeptide binding]; other site 907239003757 active site 907239003758 motif 1; other site 907239003759 motif 2; other site 907239003760 motif 3; other site 907239003761 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 907239003762 Predicted amidohydrolase [General function prediction only]; Region: COG0388 907239003763 active site 907239003764 catalytic triad [active] 907239003765 dimer interface [polypeptide binding]; other site 907239003766 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14065 907239003767 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 907239003768 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 907239003769 S-adenosylmethionine binding site [chemical binding]; other site 907239003770 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 907239003771 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 907239003772 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 907239003773 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 907239003774 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 907239003775 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 907239003776 ABC-2 type transporter; Region: ABC2_membrane; cl17235 907239003777 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 907239003778 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 907239003779 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 907239003780 HlyD family secretion protein; Region: HlyD_3; pfam13437 907239003781 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 907239003782 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 907239003783 Domain of unknown function DUF21; Region: DUF21; pfam01595 907239003784 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 907239003785 Transporter associated domain; Region: CorC_HlyC; smart01091 907239003786 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 907239003787 Phosphate transporter family; Region: PHO4; pfam01384 907239003788 NifU-like domain; Region: NifU; pfam01106 907239003789 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 907239003790 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 907239003791 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 907239003792 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 907239003793 putative active site [active] 907239003794 transaldolase; Provisional; Region: PRK03903 907239003795 catalytic residue [active] 907239003796 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 907239003797 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 907239003798 5S rRNA interface [nucleotide binding]; other site 907239003799 CTC domain interface [polypeptide binding]; other site 907239003800 L16 interface [polypeptide binding]; other site 907239003801 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 907239003802 putative active site [active] 907239003803 catalytic residue [active] 907239003804 Predicted permeases [General function prediction only]; Region: COG0795 907239003805 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 907239003806 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 907239003807 PLD-like domain; Region: PLDc_2; pfam13091 907239003808 homodimer interface [polypeptide binding]; other site 907239003809 putative active site [active] 907239003810 catalytic site [active] 907239003811 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 907239003812 potential frameshift: common BLAST hit: gi|210135667|ref|YP_002302106.1| restriction endonuclease 907239003813 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239003814 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 907239003815 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 907239003816 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 907239003817 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 907239003818 metal-binding site [ion binding] 907239003819 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 907239003820 Soluble P-type ATPase [General function prediction only]; Region: COG4087 907239003821 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 907239003822 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 907239003823 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 907239003824 catalytic motif [active] 907239003825 Zn binding site [ion binding]; other site 907239003826 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 907239003827 RibD C-terminal domain; Region: RibD_C; cl17279 907239003828 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 907239003829 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 907239003830 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 907239003831 NAD(P) binding pocket [chemical binding]; other site 907239003832 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 907239003833 4Fe-4S binding domain; Region: Fer4_5; pfam12801 907239003834 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 907239003835 acyl-phosphate glycerol 3-phosphate acyltransferase; Region: TIGR00023 907239003836 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 907239003837 active site 907239003838 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 907239003839 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 907239003840 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 907239003841 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 907239003842 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 907239003843 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 907239003844 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 907239003845 catalytic residue [active] 907239003846 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 907239003847 NusA N-terminal domain; Region: NusA_N; pfam08529 907239003848 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 907239003849 RNA binding site [nucleotide binding]; other site 907239003850 homodimer interface [polypeptide binding]; other site 907239003851 NusA-like KH domain; Region: KH_5; pfam13184 907239003852 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 907239003853 G-X-X-G motif; other site 907239003854 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 907239003855 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 907239003856 potential frameshift: common BLAST hit: gi|15612475|ref|NP_224128.1| type III restriction enzyme 907239003857 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 907239003858 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 907239003859 DNA methylase; Region: N6_N4_Mtase; cl17433 907239003860 DNA methylase; Region: N6_N4_Mtase; pfam01555 907239003861 DNA methylase; Region: N6_N4_Mtase; cl17433 907239003862 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 907239003863 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 907239003864 ssDNA binding site; other site 907239003865 generic binding surface II; other site 907239003866 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 907239003867 ATP binding site [chemical binding]; other site 907239003868 putative Mg++ binding site [ion binding]; other site 907239003869 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 907239003870 nucleotide binding region [chemical binding]; other site 907239003871 ATP-binding site [chemical binding]; other site 907239003872 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239003873 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 907239003874 active site 907239003875 putative catalytic site [active] 907239003876 DNA binding site [nucleotide binding] 907239003877 putative phosphate binding site [ion binding]; other site 907239003878 metal binding site A [ion binding]; metal-binding site 907239003879 AP binding site [nucleotide binding]; other site 907239003880 metal binding site B [ion binding]; metal-binding site 907239003881 potential protein location (hypothetical protein HPSA_07290 [Helicobacter pylori SouthAfrica7]) that overlaps RNA (tRNA-F) 907239003882 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 907239003883 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 907239003884 Walker A motif; other site 907239003885 ATP binding site [chemical binding]; other site 907239003886 Walker B motif; other site 907239003887 arginine finger; other site 907239003888 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 907239003889 DnaA box-binding interface [nucleotide binding]; other site 907239003890 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 907239003891 Protein of unknown function (DUF2443); Region: DUF2443; pfam10398 907239003892 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 907239003893 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 907239003894 glutaminase active site [active] 907239003895 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 907239003896 dimer interface [polypeptide binding]; other site 907239003897 active site 907239003898 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 907239003899 dimer interface [polypeptide binding]; other site 907239003900 active site 907239003901 Predicted alternative thymidylate synthase [Nucleotide transport and metabolism]; Region: THY1; COG1351 907239003902 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 907239003903 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 907239003904 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 907239003905 Abi-like protein; Region: Abi_2; cl01988 907239003906 HsdM N-terminal domain; Region: HsdM_N; pfam12161 907239003907 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 907239003908 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 907239003909 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 907239003910 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 907239003911 ATP binding site [chemical binding]; other site 907239003912 putative Mg++ binding site [ion binding]; other site 907239003913 Protein of unknown function DUF45; Region: DUF45; pfam01863 907239003914 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 907239003915 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 907239003916 N-terminal plug; other site 907239003917 ligand-binding site [chemical binding]; other site 907239003918 Arginase family; Region: Arginase; cd09989 907239003919 active site 907239003920 Mn binding site [ion binding]; other site 907239003921 oligomer interface [polypeptide binding]; other site 907239003922 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 907239003923 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 907239003924 hexamer interface [polypeptide binding]; other site 907239003925 ligand binding site [chemical binding]; other site 907239003926 putative active site [active] 907239003927 NAD(P) binding site [chemical binding]; other site 907239003928 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 907239003929 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 907239003930 putative NAD(P) binding site [chemical binding]; other site 907239003931 putative substrate binding site [chemical binding]; other site 907239003932 catalytic Zn binding site [ion binding]; other site 907239003933 structural Zn binding site [ion binding]; other site 907239003934 dimer interface [polypeptide binding]; other site 907239003935 Uncharacterized conserved protein [Function unknown]; Region: COG1479 907239003936 Protein of unknown function DUF262; Region: DUF262; pfam03235 907239003937 Protein of unknown function DUF262; Region: DUF262; pfam03235 907239003938 Uncharacterized conserved protein [Function unknown]; Region: COG1479 907239003939 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 907239003940 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907239003941 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 907239003942 ATP-NAD kinase; Region: NAD_kinase; pfam01513 907239003943 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 907239003944 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907239003945 Walker A/P-loop; other site 907239003946 ATP binding site [chemical binding]; other site 907239003947 Q-loop/lid; other site 907239003948 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 907239003949 ABC transporter signature motif; other site 907239003950 Walker B; other site 907239003951 D-loop; other site 907239003952 H-loop/switch region; other site 907239003953 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 907239003954 Domain of unknown function (DUF814); Region: DUF814; pfam05670 907239003955 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 907239003956 TPR motif; other site 907239003957 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 907239003958 binding surface 907239003959 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 907239003960 binding surface 907239003961 TPR motif; other site 907239003962 Sel1-like repeats; Region: SEL1; smart00671 907239003963 Sel1-like repeats; Region: SEL1; smart00671 907239003964 Sel1-like repeats; Region: SEL1; smart00671 907239003965 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 907239003966 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 907239003967 active site 907239003968 catalytic site [active] 907239003969 substrate binding site [chemical binding]; other site 907239003970 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 907239003971 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 907239003972 substrate binding site [chemical binding]; other site 907239003973 hexamer interface [polypeptide binding]; other site 907239003974 metal binding site [ion binding]; metal-binding site 907239003975 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 907239003976 active site 907239003977 Methyltransferase domain; Region: Methyltransf_26; pfam13659 907239003978 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 907239003979 biotin synthase; Provisional; Region: PRK08508 907239003980 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 907239003981 FeS/SAM binding site; other site 907239003982 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 907239003983 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 907239003984 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 907239003985 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 907239003986 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 907239003987 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 907239003988 DNA methylase; Region: N6_N4_Mtase; pfam01555 907239003989 DNA methylase; Region: N6_N4_Mtase; pfam01555 907239003990 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 907239003991 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 907239003992 active site 907239003993 substrate binding site [chemical binding]; other site 907239003994 Mg2+ binding site [ion binding]; other site 907239003995 prephenate dehydrogenase; Validated; Region: PRK08507 907239003996 Prephenate dehydrogenase; Region: PDH; pfam02153 907239003997 ATP-dependent protease La; Region: lon; TIGR00763 907239003998 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 907239003999 Walker A motif; other site 907239004000 ATP binding site [chemical binding]; other site 907239004001 Walker B motif; other site 907239004002 arginine finger; other site 907239004003 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 907239004004 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 907239004005 flagellar assembly protein FliW; Provisional; Region: PRK13282 907239004006 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 907239004007 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 907239004008 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 907239004009 active site 907239004010 endopeptidase Clp ATP-binding regulatory subunit (clpX); Region: clpX; TIGR00382 907239004011 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 907239004012 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 907239004013 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 907239004014 Walker A motif; other site 907239004015 ATP binding site [chemical binding]; other site 907239004016 Walker B motif; other site 907239004017 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 907239004018 rod shape-determining protein MreB; Provisional; Region: PRK13927 907239004019 MreB and similar proteins; Region: MreB_like; cd10225 907239004020 nucleotide binding site [chemical binding]; other site 907239004021 Mg binding site [ion binding]; other site 907239004022 putative protofilament interaction site [polypeptide binding]; other site 907239004023 RodZ interaction site [polypeptide binding]; other site 907239004024 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 907239004025 rod shape-determining protein MreC; Region: MreC; pfam04085 907239004026 potential frameshift: common BLAST hit: gi|15612350|ref|NP_224003.1| type III restriction enzyme R protein 907239004027 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 907239004028 Toprim-like; Region: Toprim_2; pfam13155 907239004029 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 907239004030 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 907239004031 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 907239004032 Walker A motif; other site 907239004033 ATP binding site [chemical binding]; other site 907239004034 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 907239004035 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 907239004036 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 907239004037 active site 907239004038 interdomain interaction site; other site 907239004039 putative metal-binding site [ion binding]; other site 907239004040 nucleotide binding site [chemical binding]; other site 907239004041 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 907239004042 domain I; other site 907239004043 phosphate binding site [ion binding]; other site 907239004044 Transposase IS200 like; Region: Y1_Tnp; pfam01797 907239004045 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 907239004046 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 907239004047 Probable transposase; Region: OrfB_IS605; pfam01385 907239004048 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 907239004049 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 907239004050 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 907239004051 domain III; other site 907239004052 nucleotide binding site [chemical binding]; other site 907239004053 DNA binding groove [nucleotide binding] 907239004054 catalytic site [active] 907239004055 domain II; other site 907239004056 domain IV; other site 907239004057 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 907239004058 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 907239004059 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 907239004060 VirB7 interaction site; other site 907239004061 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 907239004062 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 907239004063 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 907239004064 Walker A motif; other site 907239004065 ATP binding site [chemical binding]; other site 907239004066 Walker B motif; other site 907239004067 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 907239004068 Walker A motif; other site 907239004069 ATP binding site [chemical binding]; other site 907239004070 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 907239004071 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 907239004072 Walker B motif; other site 907239004073 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 907239004074 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 907239004075 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 907239004076 P-loop; other site 907239004077 Magnesium ion binding site [ion binding]; other site 907239004078 Methyltransferase domain; Region: Methyltransf_26; pfam13659 907239004079 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 907239004080 DEAD-like helicases superfamily; Region: DEXDc; smart00487 907239004081 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 907239004082 helicase superfamily c-terminal domain; Region: HELICc; smart00490 907239004083 nucleotide binding region [chemical binding]; other site 907239004084 ATP-binding site [chemical binding]; other site 907239004085 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 907239004086 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 907239004087 active site 907239004088 catalytic residues [active] 907239004089 DNA binding site [nucleotide binding] 907239004090 Int/Topo IB signature motif; other site 907239004091 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 907239004092 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 907239004093 DNA methylase; Region: N6_N4_Mtase; pfam01555 907239004094 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 907239004095 DNA methylase; Region: N6_N4_Mtase; cl17433 907239004096 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 907239004097 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 907239004098 active site 907239004099 phosphorylation site [posttranslational modification] 907239004100 intermolecular recognition site; other site 907239004101 dimerization interface [polypeptide binding]; other site 907239004102 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 907239004103 DNA binding site [nucleotide binding] 907239004104 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 907239004105 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 907239004106 dimer interface [polypeptide binding]; other site 907239004107 phosphorylation site [posttranslational modification] 907239004108 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 907239004109 ATP binding site [chemical binding]; other site 907239004110 Mg2+ binding site [ion binding]; other site 907239004111 G-X-G motif; other site 907239004112 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 907239004113 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 907239004114 putative substrate binding site [chemical binding]; other site 907239004115 putative ATP binding site [chemical binding]; other site 907239004116 replicative DNA helicase; Provisional; Region: PRK08506 907239004117 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 907239004118 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 907239004119 Walker A motif; other site 907239004120 ATP binding site [chemical binding]; other site 907239004121 Walker B motif; other site 907239004122 DNA binding loops [nucleotide binding] 907239004123 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 907239004124 Competence protein; Region: Competence; pfam03772 907239004125 prenyltransferase; Reviewed; Region: ubiA; PRK12874 907239004126 UbiA prenyltransferase family; Region: UbiA; pfam01040 907239004127 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 907239004128 Quinolinate synthetase A protein; Region: NadA; cl00420 907239004129 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 907239004130 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 907239004131 dimerization interface [polypeptide binding]; other site 907239004132 active site 907239004133 Predicted helicase [General function prediction only]; Region: COG4889 907239004134 Predicted helicase [General function prediction only]; Region: COG4889 907239004135 potential frameshift: common BLAST hit: gi|308183462|ref|YP_003927589.1| adenine specific DNA methyltransferase (HINFIM) 907239004136 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 907239004137 C-terminal peptidase (prc); Region: prc; TIGR00225 907239004138 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 907239004139 protein binding site [polypeptide binding]; other site 907239004140 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 907239004141 Catalytic dyad [active] 907239004142 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 907239004143 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 907239004144 putative acyl-acceptor binding pocket; other site 907239004145 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 907239004146 ligand binding site [chemical binding]; other site 907239004147 active site 907239004148 UGI interface [polypeptide binding]; other site 907239004149 catalytic site [active] 907239004150 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 907239004151 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 907239004152 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 907239004153 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 907239004154 Phosphoglycerate kinase; Region: PGK; pfam00162 907239004155 substrate binding site [chemical binding]; other site 907239004156 hinge regions; other site 907239004157 ADP binding site [chemical binding]; other site 907239004158 catalytic site [active] 907239004159 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 907239004160 Mg2+ transporter Helicobacter pylori CorA-like subgroup; Region: HpCorA-like; cd12836 907239004161 Cl binding site [ion binding]; other site 907239004162 oligomer interface [polypeptide binding]; other site 907239004163 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 907239004164 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 907239004165 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 907239004166 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 907239004167 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 907239004168 cofactor binding site; other site 907239004169 DNA binding site [nucleotide binding] 907239004170 substrate interaction site [chemical binding]; other site 907239004171 elongation factor Ts; Provisional; Region: tsf; PRK09377 907239004172 UBA/TS-N domain; Region: UBA; pfam00627 907239004173 Elongation factor TS; Region: EF_TS; pfam00889 907239004174 Elongation factor TS; Region: EF_TS; pfam00889 907239004175 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 907239004176 rRNA interaction site [nucleotide binding]; other site 907239004177 S8 interaction site; other site 907239004178 putative laminin-1 binding site; other site 907239004179 putative recombination protein RecB; Provisional; Region: PRK13909 907239004180 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 907239004181 Family description; Region: UvrD_C_2; pfam13538 907239004182 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 907239004183 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 907239004184 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 907239004185 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 907239004186 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 907239004187 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 907239004188 Protein export membrane protein; Region: SecD_SecF; pfam02355 907239004189 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 907239004190 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 907239004191 HIGH motif; other site 907239004192 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 907239004193 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 907239004194 active site 907239004195 KMSKS motif; other site 907239004196 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 907239004197 tRNA binding surface [nucleotide binding]; other site 907239004198 anticodon binding site; other site 907239004199 Lipopolysaccharide-assembly; Region: LptE; pfam04390 907239004200 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 907239004201 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 907239004202 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 907239004203 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 907239004204 Peptidase family M23; Region: Peptidase_M23; pfam01551 907239004205 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 907239004206 Peptidase family M23; Region: Peptidase_M23; pfam01551 907239004207 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 907239004208 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 907239004209 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 907239004210 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 907239004211 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 907239004212 ATP binding site [chemical binding]; other site 907239004213 putative Mg++ binding site [ion binding]; other site 907239004214 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 907239004215 nucleotide binding region [chemical binding]; other site 907239004216 ATP-binding site [chemical binding]; other site 907239004217 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 907239004218 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 907239004219 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 907239004220 iron-sulfur cluster [ion binding]; other site 907239004221 [2Fe-2S] cluster binding site [ion binding]; other site 907239004222 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 907239004223 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 907239004224 intrachain domain interface; other site 907239004225 interchain domain interface [polypeptide binding]; other site 907239004226 heme bH binding site [chemical binding]; other site 907239004227 Qi binding site; other site 907239004228 heme bL binding site [chemical binding]; other site 907239004229 Qo binding site; other site 907239004230 interchain domain interface [polypeptide binding]; other site 907239004231 intrachain domain interface; other site 907239004232 Qi binding site; other site 907239004233 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 907239004234 Qo binding site; other site 907239004235 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 907239004236 Cytochrome c; Region: Cytochrom_C; pfam00034 907239004237 Cytochrome c; Region: Cytochrom_C; cl11414 907239004238 potential frameshift: common BLAST hit: gi|315454048|ref|YP_004074318.1| sulfatase 907239004239 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 907239004240 Sulfatase; Region: Sulfatase; cl17466 907239004241 Sulfatase; Region: Sulfatase; cl17466 907239004242 Predicted ATPases [General function prediction only]; Region: COG1106 907239004243 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907239004244 Walker A/P-loop; other site 907239004245 ATP binding site [chemical binding]; other site 907239004246 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 907239004247 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 907239004248 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 907239004249 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 907239004250 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 907239004251 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 907239004252 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 907239004253 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 907239004254 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 907239004255 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 907239004256 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 907239004257 putative ligand binding site [chemical binding]; other site 907239004258 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 907239004259 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 907239004260 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 907239004261 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 907239004262 dimer interface [polypeptide binding]; other site 907239004263 decamer (pentamer of dimers) interface [polypeptide binding]; other site 907239004264 catalytic triad [active] 907239004265 peroxidatic and resolving cysteines [active] 907239004266 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 907239004267 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 907239004268 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 907239004269 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 907239004270 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 907239004271 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 907239004272 G1 box; other site 907239004273 GTP/Mg2+ binding site [chemical binding]; other site 907239004274 Switch I region; other site 907239004275 G2 box; other site 907239004276 G3 box; other site 907239004277 Switch II region; other site 907239004278 G4 box; other site 907239004279 G5 box; other site 907239004280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 907239004281 OstA-like protein; Region: OstA; pfam03968 907239004282 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 907239004283 motif II; other site 907239004284 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 907239004285 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 907239004286 Sporulation related domain; Region: SPOR; pfam05036 907239004287 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 907239004288 N-acetyl-D-glucosamine binding site [chemical binding]; other site 907239004289 catalytic residue [active] 907239004290 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 907239004291 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 907239004292 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 907239004293 active site 907239004294 riboflavin synthase, alpha subunit; Region: ribE; TIGR00187 907239004295 Lumazine binding domain; Region: Lum_binding; pfam00677 907239004296 Lumazine binding domain; Region: Lum_binding; pfam00677 907239004297 flhB C-terminus-related protein; Region: flhB_rel; TIGR00789 907239004298 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 907239004299 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 907239004300 Walker A/P-loop; other site 907239004301 ATP binding site [chemical binding]; other site 907239004302 Q-loop/lid; other site 907239004303 ABC transporter signature motif; other site 907239004304 Walker B; other site 907239004305 D-loop; other site 907239004306 H-loop/switch region; other site 907239004307 NIL domain; Region: NIL; pfam09383 907239004308 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 907239004309 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 907239004310 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 907239004311 active site 907239004312 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 907239004313 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 907239004314 Mg++ binding site [ion binding]; other site 907239004315 putative catalytic motif [active] 907239004316 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 907239004317 active site 907239004318 hydrophilic channel; other site 907239004319 dimerization interface [polypeptide binding]; other site 907239004320 catalytic residues [active] 907239004321 active site lid [active] 907239004322 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 907239004323 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 907239004324 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 907239004325 metallohydrolase, glycoprotease/Kae1 family; Region: gcp_kae1; TIGR00329 907239004326 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 907239004327 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 907239004328 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 907239004329 hypothetical protein; Provisional; Region: PRK10236 907239004330 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 907239004331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 907239004332 hypothetical protein; Provisional; Region: PRK10236 907239004333 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 907239004334 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 907239004335 Initiator Replication protein; Region: Rep_3; pfam01051 907239004336 Transposase IS200 like; Region: Y1_Tnp; pfam01797 907239004337 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 907239004338 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 907239004339 Probable transposase; Region: OrfB_IS605; pfam01385 907239004340 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 907239004341 Fic family protein [Function unknown]; Region: COG3177 907239004342 Fic/DOC family; Region: Fic; pfam02661 907239004343 Fic family protein [Function unknown]; Region: COG3177 907239004344 Fic/DOC family; Region: Fic; pfam02661 907239004345 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 907239004346 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 907239004347 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 907239004348 Probable transposase; Region: OrfB_IS605; pfam01385 907239004349 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 907239004350 Transposase IS200 like; Region: Y1_Tnp; pfam01797 907239004351 thiazole/oxazole-forming peptide maturase, SagC family component; Region: cyclo_dehy_ocin; TIGR03603 907239004352 YcaO-like family; Region: YcaO; pfam02624 907239004353 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 907239004354 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 907239004355 putative FMN binding site [chemical binding]; other site 907239004356 NADPH bind site [chemical binding]; other site 907239004357 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 907239004358 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907239004359 Walker A/P-loop; other site 907239004360 ATP binding site [chemical binding]; other site 907239004361 Q-loop/lid; other site 907239004362 ABC transporter signature motif; other site 907239004363 Walker B; other site 907239004364 D-loop; other site 907239004365 H-loop/switch region; other site 907239004366 Eukaryotic and archaeal DNA primase small subunit; Region: DNA_primase_S; pfam01896 907239004367 Abi-like protein; Region: Abi_2; cl01988 907239004368 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 907239004369 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 907239004370 Probable transposase; Region: OrfB_IS605; pfam01385 907239004371 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 907239004372 Transposase IS200 like; Region: Y1_Tnp; pfam01797 907239004373 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 907239004374 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 907239004375 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 907239004376 LabA_like proteins; Region: LabA_like; cd06167 907239004377 putative metal binding site [ion binding]; other site 907239004378 Uncharacterized conserved protein [Function unknown]; Region: COG1432