-- dump date 20140619_113604 -- class Genbank::misc_feature -- table misc_feature_note -- id note 907237000001 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 907237000002 putative RNA binding site [nucleotide binding]; other site 907237000003 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 907237000004 homopentamer interface [polypeptide binding]; other site 907237000005 active site 907237000006 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 907237000007 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 907237000008 active site clefts [active] 907237000009 zinc binding site [ion binding]; other site 907237000010 dimer interface [polypeptide binding]; other site 907237000011 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 907237000012 active site 907237000013 dimer interface [polypeptide binding]; other site 907237000014 pantoate--beta-alanine ligase; Region: panC; TIGR00018 907237000015 Pantoate-beta-alanine ligase; Region: PanC; cd00560 907237000016 active site 907237000017 ATP-binding site [chemical binding]; other site 907237000018 pantoate-binding site; other site 907237000019 HXXH motif; other site 907237000020 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237000021 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 907237000022 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 907237000023 ring oligomerisation interface [polypeptide binding]; other site 907237000024 ATP/Mg binding site [chemical binding]; other site 907237000025 stacking interactions; other site 907237000026 hinge regions; other site 907237000027 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 907237000028 oligomerisation interface [polypeptide binding]; other site 907237000029 mobile loop; other site 907237000030 roof hairpin; other site 907237000031 DNA primase, catalytic core; Region: dnaG; TIGR01391 907237000032 CHC2 zinc finger; Region: zf-CHC2; pfam01807 907237000033 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 907237000034 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 907237000035 active site 907237000036 metal binding site [ion binding]; metal-binding site 907237000037 interdomain interaction site; other site 907237000038 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 907237000039 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 907237000040 Ligand Binding Site [chemical binding]; other site 907237000041 TrbC/VIRB2 family; Region: TrbC; cl01583 907237000042 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 907237000043 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 907237000044 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 907237000045 Walker A motif; other site 907237000046 ATP binding site [chemical binding]; other site 907237000047 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 907237000048 Walker B motif; other site 907237000049 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 907237000050 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 907237000051 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 907237000052 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 907237000053 active site 907237000054 phosphorylation site [posttranslational modification] 907237000055 intermolecular recognition site; other site 907237000056 dimerization interface [polypeptide binding]; other site 907237000057 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 907237000058 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 907237000059 dimer interface [polypeptide binding]; other site 907237000060 active site 907237000061 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 907237000062 catalytic residues [active] 907237000063 substrate binding site [chemical binding]; other site 907237000064 lipid A 1-phosphatase; Reviewed; Region: PRK09597 907237000065 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 907237000066 active site 907237000067 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 907237000068 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 907237000069 Sulfatase; Region: Sulfatase; pfam00884 907237000070 potential frameshift: common BLAST hit: gi|108562448|ref|YP_626764.1| outer membrane protein HopD 907237000071 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 907237000072 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 907237000073 dimer interface [polypeptide binding]; other site 907237000074 active site 907237000075 citrylCoA binding site [chemical binding]; other site 907237000076 NADH binding [chemical binding]; other site 907237000077 cationic pore residues; other site 907237000078 oxalacetate/citrate binding site [chemical binding]; other site 907237000079 coenzyme A binding site [chemical binding]; other site 907237000080 catalytic triad [active] 907237000081 isocitrate dehydrogenase; Validated; Region: PRK07362 907237000082 isocitrate dehydrogenase; Reviewed; Region: PRK07006 907237000083 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 907237000084 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 907237000085 AAA domain; Region: AAA_26; pfam13500 907237000086 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 907237000087 Ligand Binding Site [chemical binding]; other site 907237000088 Uncharacterized conserved protein [Function unknown]; Region: COG2127 907237000089 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 907237000090 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 907237000091 Walker A motif; other site 907237000092 ATP binding site [chemical binding]; other site 907237000093 Walker B motif; other site 907237000094 arginine finger; other site 907237000095 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 907237000096 Walker A motif; other site 907237000097 ATP binding site [chemical binding]; other site 907237000098 Walker B motif; other site 907237000099 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 907237000100 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 907237000101 tetramerization interface [polypeptide binding]; other site 907237000102 active site 907237000103 hypothetical protein; Provisional; Region: PRK03762 907237000104 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 907237000105 protein binding site [polypeptide binding]; other site 907237000106 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 907237000107 potential frameshift: common BLAST hit: gi|210134234|ref|YP_002300673.1| ComB6 competence protein 907237000108 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 907237000109 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 907237000110 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 907237000111 VirB7 interaction site; other site 907237000112 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 907237000113 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 907237000114 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 907237000115 Substrate binding site; other site 907237000116 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 907237000117 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 907237000118 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 907237000119 NADP-binding site; other site 907237000120 homotetramer interface [polypeptide binding]; other site 907237000121 substrate binding site [chemical binding]; other site 907237000122 homodimer interface [polypeptide binding]; other site 907237000123 active site 907237000124 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 907237000125 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 907237000126 NADP binding site [chemical binding]; other site 907237000127 active site 907237000128 putative substrate binding site [chemical binding]; other site 907237000129 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 907237000130 dimerization interface [polypeptide binding]; other site 907237000131 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 907237000132 ATP binding site [chemical binding]; other site 907237000133 Acylphosphatase; Region: Acylphosphatase; pfam00708 907237000134 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 907237000135 HypF finger; Region: zf-HYPF; pfam07503 907237000136 HypF finger; Region: zf-HYPF; pfam07503 907237000137 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 907237000138 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957 907237000139 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 907237000140 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 907237000141 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 907237000142 cofactor binding site; other site 907237000143 DNA binding site [nucleotide binding] 907237000144 substrate interaction site [chemical binding]; other site 907237000145 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 907237000146 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 907237000147 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 907237000148 Na binding site [ion binding]; other site 907237000149 Proline dehydrogenase; Region: Pro_dh; pfam01619 907237000150 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 907237000151 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 907237000152 Glutamate binding site [chemical binding]; other site 907237000153 NAD binding site [chemical binding]; other site 907237000154 catalytic residues [active] 907237000155 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 907237000156 potential frameshift: common BLAST hit: gi|15644696|ref|NP_206866.1| ATP-binding protein 907237000157 potential frameshift: common BLAST hit: gi|15644696|ref|NP_206866.1| ATP-binding protein 907237000158 potential frameshift: common BLAST hit: gi|15644696|ref|NP_206866.1| ATP-binding protein 907237000159 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 907237000160 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 907237000161 G1 box; other site 907237000162 GTP/Mg2+ binding site [chemical binding]; other site 907237000163 G2 box; other site 907237000164 Switch I region; other site 907237000165 G3 box; other site 907237000166 Switch II region; other site 907237000167 G4 box; other site 907237000168 G5 box; other site 907237000169 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 907237000170 UreF; Region: UreF; pfam01730 907237000171 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 907237000172 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 907237000173 dimer interface [polypeptide binding]; other site 907237000174 catalytic residues [active] 907237000175 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 907237000176 urease subunit beta; Provisional; Region: ureB; PRK13985 907237000177 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 907237000178 subunit interactions [polypeptide binding]; other site 907237000179 active site 907237000180 flap region; other site 907237000181 urease subunit alpha; Provisional; Region: PRK13986 907237000182 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 907237000183 alpha-gamma subunit interface [polypeptide binding]; other site 907237000184 beta-gamma subunit interface [polypeptide binding]; other site 907237000185 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 907237000186 gamma-beta subunit interface [polypeptide binding]; other site 907237000187 alpha-beta subunit interface [polypeptide binding]; other site 907237000188 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 907237000189 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 907237000190 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 907237000191 active site 907237000192 substrate binding site [chemical binding]; other site 907237000193 metal binding site [ion binding]; metal-binding site 907237000194 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 907237000195 peptide chain release factor 1; Validated; Region: prfA; PRK00591 907237000196 This domain is found in peptide chain release factors; Region: PCRF; smart00937 907237000197 RF-1 domain; Region: RF-1; pfam00472 907237000198 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237000199 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 907237000200 dimer interface [polypeptide binding]; other site 907237000201 putative CheW interface [polypeptide binding]; other site 907237000202 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 907237000203 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 907237000204 23S rRNA interface [nucleotide binding]; other site 907237000205 L3 interface [polypeptide binding]; other site 907237000206 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 907237000207 Predicted dehydrogenase [General function prediction only]; Region: COG0579 907237000208 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 907237000209 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 907237000210 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 907237000211 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 907237000212 NlpC/P60 family; Region: NLPC_P60; pfam00877 907237000213 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 907237000214 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 907237000215 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 907237000216 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 907237000217 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 907237000218 DNA binding residues [nucleotide binding] 907237000219 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 907237000220 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 907237000221 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 907237000222 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 907237000223 Protein of unknown function (DUF511); Region: DUF511; pfam04373 907237000224 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 907237000225 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 907237000226 DNA methylase; Region: N6_N4_Mtase; pfam01555 907237000227 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 907237000228 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 907237000229 GDP-Fucose binding site [chemical binding]; other site 907237000230 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 907237000231 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 907237000232 NAD binding site [chemical binding]; other site 907237000233 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 907237000234 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 907237000235 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907237000236 catalytic residue [active] 907237000237 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 907237000238 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 907237000239 dimer interface [polypeptide binding]; other site 907237000240 putative CheW interface [polypeptide binding]; other site 907237000241 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 907237000242 Ligand Binding Site [chemical binding]; other site 907237000243 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237000244 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 907237000245 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 907237000246 metal-binding site 907237000247 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 907237000248 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 907237000249 dimerization interface [polypeptide binding]; other site 907237000250 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 907237000251 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 907237000252 dimer interface [polypeptide binding]; other site 907237000253 putative CheW interface [polypeptide binding]; other site 907237000254 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 907237000255 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 907237000256 active site 907237000257 metal binding site [ion binding]; metal-binding site 907237000258 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 907237000259 S-ribosylhomocysteinase; Provisional; Region: PRK02260 907237000260 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 907237000261 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 907237000262 homodimer interface [polypeptide binding]; other site 907237000263 substrate-cofactor binding pocket; other site 907237000264 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907237000265 catalytic residue [active] 907237000266 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 907237000267 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 907237000268 dimer interface [polypeptide binding]; other site 907237000269 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907237000270 catalytic residue [active] 907237000271 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 907237000272 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 907237000273 nucleotide binding site [chemical binding]; other site 907237000274 NEF interaction site [polypeptide binding]; other site 907237000275 SBD interface [polypeptide binding]; other site 907237000276 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 907237000277 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 907237000278 dimer interface [polypeptide binding]; other site 907237000279 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 907237000280 heat-inducible transcription repressor; Provisional; Region: PRK03911 907237000281 hypothetical protein; Provisional; Region: PRK05834 907237000282 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 907237000283 flagellin B; Provisional; Region: PRK13588 907237000284 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 907237000285 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 907237000286 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 907237000287 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 907237000288 DNA topoisomerase I; Validated; Region: PRK05582 907237000289 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 907237000290 active site 907237000291 interdomain interaction site; other site 907237000292 putative metal-binding site [ion binding]; other site 907237000293 nucleotide binding site [chemical binding]; other site 907237000294 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 907237000295 domain I; other site 907237000296 DNA binding groove [nucleotide binding] 907237000297 phosphate binding site [ion binding]; other site 907237000298 domain II; other site 907237000299 domain III; other site 907237000300 nucleotide binding site [chemical binding]; other site 907237000301 catalytic site [active] 907237000302 domain IV; other site 907237000303 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 907237000304 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 907237000305 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 907237000306 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 907237000307 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 907237000308 FeS/SAM binding site; other site 907237000309 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 907237000310 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 907237000311 phosphoenolpyruvate synthase; Validated; Region: PRK06464 907237000312 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 907237000313 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 907237000314 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 907237000315 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 907237000316 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 907237000317 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 907237000318 active site 907237000319 dimer interface [polypeptide binding]; other site 907237000320 motif 1; other site 907237000321 motif 2; other site 907237000322 motif 3; other site 907237000323 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 907237000324 anticodon binding site; other site 907237000325 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 907237000326 translation initiation factor IF-3; Region: infC; TIGR00168 907237000327 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 907237000328 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 907237000329 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 907237000330 23S rRNA binding site [nucleotide binding]; other site 907237000331 L21 binding site [polypeptide binding]; other site 907237000332 L13 binding site [polypeptide binding]; other site 907237000333 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237000334 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 907237000335 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 907237000336 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 907237000337 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 907237000338 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 907237000339 serine transporter; Region: stp; TIGR00814 907237000340 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG3200 907237000341 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 907237000342 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 907237000343 catalytic triad [active] 907237000344 Uncharacterized conserved protein [Function unknown]; Region: COG1556 907237000345 iron-sulfur cluster-binding protein; Region: TIGR00273 907237000346 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 907237000347 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 907237000348 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 907237000349 Cysteine-rich domain; Region: CCG; pfam02754 907237000350 Cysteine-rich domain; Region: CCG; pfam02754 907237000351 L-lactate transport; Region: lctP; TIGR00795 907237000352 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 907237000353 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 907237000354 L-lactate transport; Region: lctP; TIGR00795 907237000355 DNA glycosylase MutY; Provisional; Region: PRK13910 907237000356 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 907237000357 minor groove reading motif; other site 907237000358 helix-hairpin-helix signature motif; other site 907237000359 substrate binding pocket [chemical binding]; other site 907237000360 active site 907237000361 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 907237000362 DNA binding and oxoG recognition site [nucleotide binding] 907237000363 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 907237000364 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 907237000365 transmembrane helices; other site 907237000366 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 907237000367 Low-spin heme binding site [chemical binding]; other site 907237000368 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 907237000369 D-pathway; other site 907237000370 Putative water exit pathway; other site 907237000371 Binuclear center (active site) [active] 907237000372 K-pathway; other site 907237000373 Putative proton exit pathway; other site 907237000374 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 907237000375 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 907237000376 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 907237000377 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 907237000378 Cytochrome c; Region: Cytochrom_C; pfam00034 907237000379 Cytochrome c; Region: Cytochrom_C; pfam00034 907237000380 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 907237000381 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 907237000382 recombinase A; Provisional; Region: recA; PRK09354 907237000383 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 907237000384 hexamer interface [polypeptide binding]; other site 907237000385 Walker A motif; other site 907237000386 ATP binding site [chemical binding]; other site 907237000387 Walker B motif; other site 907237000388 enolase; Provisional; Region: eno; PRK00077 907237000389 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 907237000390 dimer interface [polypeptide binding]; other site 907237000391 metal binding site [ion binding]; metal-binding site 907237000392 substrate binding pocket [chemical binding]; other site 907237000393 AMIN domain; Region: AMIN; pfam11741 907237000394 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 907237000395 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 907237000396 ADP binding site [chemical binding]; other site 907237000397 magnesium binding site [ion binding]; other site 907237000398 putative shikimate binding site; other site 907237000399 Cache domain; Region: Cache_1; pfam02743 907237000400 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 907237000401 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 907237000402 Ligand binding site; other site 907237000403 metal-binding site 907237000404 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 907237000405 Sel1-like repeats; Region: SEL1; smart00671 907237000406 Sel1-like repeats; Region: SEL1; smart00671 907237000407 Sel1-like repeats; Region: SEL1; smart00671 907237000408 Sel1 repeat; Region: Sel1; cl02723 907237000409 Sel1-like repeats; Region: SEL1; smart00671 907237000410 Sel1-like repeats; Region: SEL1; smart00671 907237000411 hypothetical protein; Provisional; Region: PRK12378 907237000412 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 907237000413 dimer interface [polypeptide binding]; other site 907237000414 active site 907237000415 Schiff base residues; other site 907237000416 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 907237000417 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 907237000418 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 907237000419 dimer interface [polypeptide binding]; other site 907237000420 phosphorylation site [posttranslational modification] 907237000421 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 907237000422 ATP binding site [chemical binding]; other site 907237000423 Mg2+ binding site [ion binding]; other site 907237000424 G-X-G motif; other site 907237000425 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 907237000426 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 907237000427 active site 907237000428 phosphorylation site [posttranslational modification] 907237000429 intermolecular recognition site; other site 907237000430 dimerization interface [polypeptide binding]; other site 907237000431 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 907237000432 DNA binding site [nucleotide binding] 907237000433 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 907237000434 Peptidase family U32; Region: Peptidase_U32; pfam01136 907237000435 peptide chain release factor 2; Region: prfB; TIGR00020 907237000436 This domain is found in peptide chain release factors; Region: PCRF; smart00937 907237000437 RF-1 domain; Region: RF-1; pfam00472 907237000438 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 907237000439 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 907237000440 dimer interface [polypeptide binding]; other site 907237000441 putative functional site; other site 907237000442 putative MPT binding site; other site 907237000443 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 907237000444 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 907237000445 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 907237000446 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 907237000447 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 907237000448 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 907237000449 intersubunit interface [polypeptide binding]; other site 907237000450 active site 907237000451 zinc binding site [ion binding]; other site 907237000452 Na+ binding site [ion binding]; other site 907237000453 elongation factor P; Validated; Region: PRK00529 907237000454 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 907237000455 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 907237000456 RNA binding site [nucleotide binding]; other site 907237000457 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 907237000458 RNA binding site [nucleotide binding]; other site 907237000459 pseudaminic acid synthase; Region: PseI; TIGR03586 907237000460 NeuB family; Region: NeuB; pfam03102 907237000461 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 907237000462 NeuB binding interface [polypeptide binding]; other site 907237000463 putative substrate binding site [chemical binding]; other site 907237000464 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 907237000465 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 907237000466 Walker A/P-loop; other site 907237000467 ATP binding site [chemical binding]; other site 907237000468 Q-loop/lid; other site 907237000469 ABC transporter signature motif; other site 907237000470 Walker B; other site 907237000471 D-loop; other site 907237000472 H-loop/switch region; other site 907237000473 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 907237000474 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 907237000475 active site 907237000476 catalytic triad [active] 907237000477 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 907237000478 Colicin V production protein; Region: Colicin_V; pfam02674 907237000479 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 907237000480 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 907237000481 dimer interface [polypeptide binding]; other site 907237000482 putative anticodon binding site; other site 907237000483 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 907237000484 motif 1; other site 907237000485 active site 907237000486 motif 2; other site 907237000487 motif 3; other site 907237000488 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 907237000489 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 907237000490 dimer interface [polypeptide binding]; other site 907237000491 active site 907237000492 glycine-pyridoxal phosphate binding site [chemical binding]; other site 907237000493 folate binding site [chemical binding]; other site 907237000494 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 907237000495 nucleotide binding site [chemical binding]; other site 907237000496 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 907237000497 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 907237000498 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 907237000499 PLD-like domain; Region: PLDc_2; pfam13091 907237000500 putative active site [active] 907237000501 catalytic site [active] 907237000502 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 907237000503 PLD-like domain; Region: PLDc_2; pfam13091 907237000504 putative active site [active] 907237000505 catalytic site [active] 907237000506 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 907237000507 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 907237000508 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 907237000509 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 907237000510 L-aspartate oxidase; Provisional; Region: PRK06175 907237000511 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 907237000512 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 907237000513 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 907237000514 Iron-sulfur protein interface; other site 907237000515 proximal heme binding site [chemical binding]; other site 907237000516 distal heme binding site [chemical binding]; other site 907237000517 dimer interface [polypeptide binding]; other site 907237000518 triosephosphate isomerase; Provisional; Region: PRK14567 907237000519 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 907237000520 substrate binding site [chemical binding]; other site 907237000521 dimer interface [polypeptide binding]; other site 907237000522 catalytic triad [active] 907237000523 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 907237000524 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 907237000525 NAD binding site [chemical binding]; other site 907237000526 homotetramer interface [polypeptide binding]; other site 907237000527 homodimer interface [polypeptide binding]; other site 907237000528 substrate binding site [chemical binding]; other site 907237000529 active site 907237000530 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 907237000531 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 907237000532 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 907237000533 trimer interface [polypeptide binding]; other site 907237000534 active site 907237000535 UDP-GlcNAc binding site [chemical binding]; other site 907237000536 lipid binding site [chemical binding]; lipid-binding site 907237000537 S-adenosylmethionine synthetase; Validated; Region: PRK05250 907237000538 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 907237000539 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 907237000540 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 907237000541 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 907237000542 active site 907237000543 multimer interface [polypeptide binding]; other site 907237000544 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 907237000545 fatty acid/phospholipid synthesis protein PlsX; Region: plsX; TIGR00182 907237000546 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 907237000547 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 907237000548 dimer interface [polypeptide binding]; other site 907237000549 active site 907237000550 CoA binding pocket [chemical binding]; other site 907237000551 AAA ATPase domain; Region: AAA_15; pfam13175 907237000552 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 907237000553 Walker B; other site 907237000554 D-loop; other site 907237000555 H-loop/switch region; other site 907237000556 antiporter inner membrane protein; Provisional; Region: PRK11670 907237000557 Domain of unknown function DUF59; Region: DUF59; pfam01883 907237000558 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 907237000559 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 907237000560 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 907237000561 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 907237000562 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 907237000563 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 907237000564 heat shock protein 90; Provisional; Region: PRK05218 907237000565 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 907237000566 ATP binding site [chemical binding]; other site 907237000567 Mg2+ binding site [ion binding]; other site 907237000568 G-X-G motif; other site 907237000569 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 907237000570 Sel1-like repeats; Region: SEL1; smart00671 907237000571 Sel1-like repeats; Region: SEL1; smart00671 907237000572 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 907237000573 TPR motif; other site 907237000574 binding surface 907237000575 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 907237000576 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 907237000577 metal binding site [ion binding]; metal-binding site 907237000578 dimer interface [polypeptide binding]; other site 907237000579 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 907237000580 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 907237000581 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 907237000582 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 907237000583 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 907237000584 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 907237000585 transmembrane helices; other site 907237000586 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 907237000587 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 907237000588 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: Dxr; TIGR00243 907237000589 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 907237000590 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 907237000591 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 907237000592 Beta-1,4-N-acetylgalactosaminyltransferase (CgtA); Region: CgtA; pfam06306 907237000593 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 907237000594 substrate binding site [chemical binding]; other site 907237000595 Helix-turn-helix domain; Region: HTH_28; pfam13518 907237000596 cysteine desulfurase, NifS family, epsilon proteobacteria type; Region: nifS_epsilon; TIGR03403 907237000597 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 907237000598 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 907237000599 catalytic residue [active] 907237000600 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 907237000601 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 907237000602 trimerization site [polypeptide binding]; other site 907237000603 active site 907237000604 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 907237000605 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 907237000606 DNA repair protein RadA; Region: sms; TIGR00416 907237000607 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 907237000608 Walker A motif/ATP binding site; other site 907237000609 ATP binding site [chemical binding]; other site 907237000610 Walker B motif; other site 907237000611 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 907237000612 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 907237000613 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 907237000614 SelR domain; Region: SelR; pfam01641 907237000615 Predicted permeases [General function prediction only]; Region: COG0730 907237000616 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237000617 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 907237000618 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 907237000619 Sulfate transporter family; Region: Sulfate_transp; pfam00916 907237000620 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237000621 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 907237000622 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 907237000623 Ligand binding site; other site 907237000624 oligomer interface; other site 907237000625 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 907237000626 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 907237000627 hypothetical protein; Provisional; Region: PRK04081 907237000628 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 907237000629 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 907237000630 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 907237000631 binding surface 907237000632 TPR motif; other site 907237000633 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 907237000634 binding surface 907237000635 TPR motif; other site 907237000636 Sel1-like repeats; Region: SEL1; smart00671 907237000637 Sel1-like repeats; Region: SEL1; smart00671 907237000638 Cytochrome c; Region: Cytochrom_C; cl11414 907237000639 Porphobilinogen deaminase [Coenzyme metabolism]; Region: HemC; COG0181 907237000640 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 907237000641 domain interfaces; other site 907237000642 active site 907237000643 prolyl-tRNA synthetase, family II; Region: proS_fam_II; TIGR00409 907237000644 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 907237000645 dimer interface [polypeptide binding]; other site 907237000646 motif 1; other site 907237000647 active site 907237000648 motif 2; other site 907237000649 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 907237000650 putative deacylase active site [active] 907237000651 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 907237000652 active site 907237000653 motif 3; other site 907237000654 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 907237000655 anticodon binding site; other site 907237000656 glutamyl-tRNA reductase; Region: hemA; TIGR01035 907237000657 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 907237000658 tRNA; other site 907237000659 putative tRNA binding site [nucleotide binding]; other site 907237000660 putative NADP binding site [chemical binding]; other site 907237000661 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 907237000662 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 907237000663 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 907237000664 substrate binding pocket [chemical binding]; other site 907237000665 chain length determination region; other site 907237000666 substrate-Mg2+ binding site; other site 907237000667 catalytic residues [active] 907237000668 aspartate-rich region 1; other site 907237000669 active site lid residues [active] 907237000670 aspartate-rich region 2; other site 907237000671 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 907237000672 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 907237000673 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 907237000674 dimerization interface [polypeptide binding]; other site 907237000675 DPS ferroxidase diiron center [ion binding]; other site 907237000676 ion pore; other site 907237000677 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 907237000678 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 907237000679 dimer interface [polypeptide binding]; other site 907237000680 phosphorylation site [posttranslational modification] 907237000681 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 907237000682 ATP binding site [chemical binding]; other site 907237000683 Mg2+ binding site [ion binding]; other site 907237000684 G-X-G motif; other site 907237000685 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 907237000686 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 907237000687 helicase 45; Provisional; Region: PTZ00424 907237000688 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 907237000689 ATP binding site [chemical binding]; other site 907237000690 Mg++ binding site [ion binding]; other site 907237000691 motif III; other site 907237000692 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 907237000693 nucleotide binding region [chemical binding]; other site 907237000694 ATP-binding site [chemical binding]; other site 907237000695 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 907237000696 SPFH domain / Band 7 family; Region: Band_7; pfam01145 907237000697 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 907237000698 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 907237000699 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 907237000700 Walker A/P-loop; other site 907237000701 ATP binding site [chemical binding]; other site 907237000702 Q-loop/lid; other site 907237000703 ABC transporter signature motif; other site 907237000704 Walker B; other site 907237000705 D-loop; other site 907237000706 H-loop/switch region; other site 907237000707 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 907237000708 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 907237000709 Walker A/P-loop; other site 907237000710 ATP binding site [chemical binding]; other site 907237000711 Q-loop/lid; other site 907237000712 ABC transporter signature motif; other site 907237000713 Walker B; other site 907237000714 D-loop; other site 907237000715 H-loop/switch region; other site 907237000716 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 907237000717 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 907237000718 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 907237000719 dimer interface [polypeptide binding]; other site 907237000720 conserved gate region; other site 907237000721 putative PBP binding loops; other site 907237000722 ABC-ATPase subunit interface; other site 907237000723 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237000724 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237000725 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 907237000726 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 907237000727 GDP-binding site [chemical binding]; other site 907237000728 ACT binding site; other site 907237000729 IMP binding site; other site 907237000730 Uncharacterized conserved protein [Function unknown]; Region: COG3334 907237000731 RIP metalloprotease RseP; Region: TIGR00054 907237000732 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 907237000733 active site 907237000734 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 907237000735 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 907237000736 putative substrate binding region [chemical binding]; other site 907237000737 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 907237000738 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 907237000739 generic binding surface II; other site 907237000740 generic binding surface I; other site 907237000741 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 907237000742 DNA methylase; Region: N6_N4_Mtase; pfam01555 907237000743 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 907237000744 Clp amino terminal domain; Region: Clp_N; pfam02861 907237000745 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 907237000746 Walker A motif; other site 907237000747 ATP binding site [chemical binding]; other site 907237000748 Walker B motif; other site 907237000749 arginine finger; other site 907237000750 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 907237000751 Walker A motif; other site 907237000752 ATP binding site [chemical binding]; other site 907237000753 Walker B motif; other site 907237000754 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 907237000755 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 907237000756 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 907237000757 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 907237000758 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 907237000759 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 907237000760 active site 907237000761 chlorohydrolase; Provisional; Region: PRK08418 907237000762 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 907237000763 active site 907237000764 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 907237000765 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 907237000766 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 907237000767 FeS/SAM binding site; other site 907237000768 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 907237000769 putative acyl-acceptor binding pocket; other site 907237000770 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 907237000771 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 907237000772 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 907237000773 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 907237000774 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 907237000775 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 907237000776 putative active site [active] 907237000777 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 907237000778 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 907237000779 putative acyl-acceptor binding pocket; other site 907237000780 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 907237000781 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 907237000782 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 907237000783 TrkA-C domain; Region: TrkA_C; pfam02080 907237000784 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 907237000785 active site 907237000786 dimer interface [polypeptide binding]; other site 907237000787 metal binding site [ion binding]; metal-binding site 907237000788 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 907237000789 Mechanosensitive ion channel; Region: MS_channel; pfam00924 907237000790 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 907237000791 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 907237000792 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 907237000793 FeS/SAM binding site; other site 907237000794 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 907237000795 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 907237000796 Walker A motif; other site 907237000797 ATP binding site [chemical binding]; other site 907237000798 Walker B motif; other site 907237000799 arginine finger; other site 907237000800 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 907237000801 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907237000802 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907237000803 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 907237000804 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907237000805 Autotransporter beta-domain; Region: Autotransporter; pfam03797 907237000806 diaminopimelate decarboxylase; Region: lysA; TIGR01048 907237000807 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 907237000808 active site 907237000809 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 907237000810 substrate binding site [chemical binding]; other site 907237000811 catalytic residues [active] 907237000812 dimer interface [polypeptide binding]; other site 907237000813 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 907237000814 aminodeoxychorismate synthase; Provisional; Region: PRK07508 907237000815 chorismate binding enzyme; Region: Chorismate_bind; cl10555 907237000816 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 907237000817 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 907237000818 substrate-cofactor binding pocket; other site 907237000819 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 907237000820 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 907237000821 multimer interface [polypeptide binding]; other site 907237000822 active site 907237000823 catalytic triad [active] 907237000824 dimer interface [polypeptide binding]; other site 907237000825 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08412 907237000826 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 907237000827 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 907237000828 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 907237000829 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 907237000830 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 907237000831 peptide binding site [polypeptide binding]; other site 907237000832 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 907237000833 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 907237000834 dimer interface [polypeptide binding]; other site 907237000835 conserved gate region; other site 907237000836 putative PBP binding loops; other site 907237000837 ABC-ATPase subunit interface; other site 907237000838 dipeptide transporter; Provisional; Region: PRK10913 907237000839 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 907237000840 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 907237000841 dimer interface [polypeptide binding]; other site 907237000842 conserved gate region; other site 907237000843 putative PBP binding loops; other site 907237000844 ABC-ATPase subunit interface; other site 907237000845 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 907237000846 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 907237000847 Walker A/P-loop; other site 907237000848 ATP binding site [chemical binding]; other site 907237000849 Q-loop/lid; other site 907237000850 ABC transporter signature motif; other site 907237000851 Walker B; other site 907237000852 D-loop; other site 907237000853 H-loop/switch region; other site 907237000854 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 907237000855 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 907237000856 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 907237000857 Walker A/P-loop; other site 907237000858 ATP binding site [chemical binding]; other site 907237000859 Q-loop/lid; other site 907237000860 ABC transporter signature motif; other site 907237000861 Walker B; other site 907237000862 D-loop; other site 907237000863 H-loop/switch region; other site 907237000864 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 907237000865 GTPase CgtA; Reviewed; Region: obgE; PRK12299 907237000866 GTP1/OBG; Region: GTP1_OBG; pfam01018 907237000867 Obg GTPase; Region: Obg; cd01898 907237000868 G1 box; other site 907237000869 GTP/Mg2+ binding site [chemical binding]; other site 907237000870 Switch I region; other site 907237000871 G2 box; other site 907237000872 G3 box; other site 907237000873 Switch II region; other site 907237000874 G4 box; other site 907237000875 Alginate lyase; Region: Alginate_lyase; pfam05426 907237000876 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 907237000877 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 907237000878 inhibitor-cofactor binding pocket; inhibition site 907237000879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907237000880 catalytic residue [active] 907237000881 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 907237000882 Predicted amidohydrolase [General function prediction only]; Region: COG0388 907237000883 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 907237000884 active site 907237000885 catalytic triad [active] 907237000886 dimer interface [polypeptide binding]; other site 907237000887 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 907237000888 active site 907237000889 catalytic site [active] 907237000890 Zn binding site [ion binding]; other site 907237000891 tetramer interface [polypeptide binding]; other site 907237000892 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 907237000893 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 907237000894 Methyltransferase domain; Region: Methyltransf_26; pfam13659 907237000895 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 907237000896 S-adenosylmethionine binding site [chemical binding]; other site 907237000897 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 907237000898 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 907237000899 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 907237000900 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 907237000901 Major Facilitator Superfamily; Region: MFS_1; pfam07690 907237000902 putative substrate translocation pore; other site 907237000903 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 907237000904 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 907237000905 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 907237000906 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 907237000907 arginyl-tRNA synthetase; Region: argS; TIGR00456 907237000908 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 907237000909 active site 907237000910 HIGH motif; other site 907237000911 KMSK motif region; other site 907237000912 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 907237000913 tRNA binding surface [nucleotide binding]; other site 907237000914 anticodon binding site; other site 907237000915 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 907237000916 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 907237000917 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 907237000918 catalytic site [active] 907237000919 G-X2-G-X-G-K; other site 907237000920 nuclease NucT; Provisional; Region: PRK13912 907237000921 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 907237000922 putative active site [active] 907237000923 catalytic site [active] 907237000924 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237000925 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 907237000926 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 907237000927 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 907237000928 ligand binding site; other site 907237000929 tetramer interface; other site 907237000930 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 907237000931 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 907237000932 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 907237000933 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 907237000934 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 907237000935 NAD synthetase; Provisional; Region: PRK13980 907237000936 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 907237000937 homodimer interface [polypeptide binding]; other site 907237000938 NAD binding pocket [chemical binding]; other site 907237000939 ATP binding pocket [chemical binding]; other site 907237000940 Mg binding site [ion binding]; other site 907237000941 active-site loop [active] 907237000942 ketol-acid reductoisomerase; Provisional; Region: PRK05479 907237000943 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 907237000944 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 907237000945 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 907237000946 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 907237000947 Switch I; other site 907237000948 Switch II; other site 907237000949 cell division topological specificity factor MinE; Region: minE; TIGR01215 907237000950 DNA protecting protein DprA; Region: dprA; TIGR00732 907237000951 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 907237000952 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 907237000953 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 907237000954 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 907237000955 binding surface 907237000956 TPR motif; other site 907237000957 Sel1-like repeats; Region: SEL1; smart00671 907237000958 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 907237000959 catalytic residue [active] 907237000960 Phage lysozyme; Region: Phage_lysozyme; pfam00959 907237000961 Predicted membrane protein [Function unknown]; Region: COG3326 907237000962 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 907237000963 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 907237000964 active site 907237000965 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 907237000966 DHH family; Region: DHH; pfam01368 907237000967 DHHA1 domain; Region: DHHA1; pfam02272 907237000968 CTP synthetase; Validated; Region: pyrG; PRK05380 907237000969 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 907237000970 Catalytic site [active] 907237000971 active site 907237000972 UTP binding site [chemical binding]; other site 907237000973 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 907237000974 active site 907237000975 putative oxyanion hole; other site 907237000976 catalytic triad [active] 907237000977 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 907237000978 active site 907237000979 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 907237000980 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 907237000981 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 907237000982 flagellar motor switch protein FliG; Region: fliG; TIGR00207 907237000983 FliG C-terminal domain; Region: FliG_C; pfam01706 907237000984 flagellar assembly protein H; Validated; Region: fliH; PRK06669 907237000985 Flagellar assembly protein FliH; Region: FliH; pfam02108 907237000986 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 907237000987 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 907237000988 TPP-binding site; other site 907237000989 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 907237000990 PYR/PP interface [polypeptide binding]; other site 907237000991 dimer interface [polypeptide binding]; other site 907237000992 TPP binding site [chemical binding]; other site 907237000993 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 907237000994 GTP-binding protein LepA; Provisional; Region: PRK05433 907237000995 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 907237000996 G1 box; other site 907237000997 putative GEF interaction site [polypeptide binding]; other site 907237000998 GTP/Mg2+ binding site [chemical binding]; other site 907237000999 Switch I region; other site 907237001000 G2 box; other site 907237001001 G3 box; other site 907237001002 Switch II region; other site 907237001003 G4 box; other site 907237001004 G5 box; other site 907237001005 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 907237001006 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 907237001007 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 907237001008 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 907237001009 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 907237001010 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 907237001011 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 907237001012 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 907237001013 potential frameshift: common BLAST hit: gi|108562782|ref|YP_627098.1| cell division protein 907237001014 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 907237001015 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 907237001016 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 907237001017 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 907237001018 TPP-binding site [chemical binding]; other site 907237001019 dimer interface [polypeptide binding]; other site 907237001020 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 907237001021 PYR/PP interface [polypeptide binding]; other site 907237001022 dimer interface [polypeptide binding]; other site 907237001023 TPP binding site [chemical binding]; other site 907237001024 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 907237001025 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 907237001026 riboflavin kinase/FMN adenylyltransferase; Region: ribF; TIGR00083 907237001027 active site 907237001028 Riboflavin kinase; Region: Flavokinase; smart00904 907237001029 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 907237001030 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 907237001031 RNA binding surface [nucleotide binding]; other site 907237001032 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 907237001033 S-adenosylmethionine binding site [chemical binding]; other site 907237001034 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 907237001035 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 907237001036 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 907237001037 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 907237001038 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 907237001039 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 907237001040 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 907237001041 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907237001042 Walker A/P-loop; other site 907237001043 ATP binding site [chemical binding]; other site 907237001044 Q-loop/lid; other site 907237001045 ABC transporter signature motif; other site 907237001046 Walker B; other site 907237001047 D-loop; other site 907237001048 H-loop/switch region; other site 907237001049 Predicted endonuclease distantly related to archaeal Holliday junction resolvase and Mrr-like restriction enzymes [Defense mechanisms]; Region: COG1787 907237001050 Restriction endonuclease; Region: Mrr_cat; pfam04471 907237001051 Predicted ATPases [General function prediction only]; Region: COG1106 907237001052 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907237001053 Walker A/P-loop; other site 907237001054 ATP binding site [chemical binding]; other site 907237001055 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907237001056 Walker B; other site 907237001057 D-loop; other site 907237001058 H-loop/switch region; other site 907237001059 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 907237001060 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 907237001061 metal-binding site [ion binding] 907237001062 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 907237001063 metal-binding site [ion binding] 907237001064 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 907237001065 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 907237001066 Soluble P-type ATPase [General function prediction only]; Region: COG4087 907237001067 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 907237001068 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 907237001069 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 907237001070 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 907237001071 Walker A motif; other site 907237001072 ATP binding site [chemical binding]; other site 907237001073 Walker B motif; other site 907237001074 arginine finger; other site 907237001075 Peptidase family M41; Region: Peptidase_M41; pfam01434 907237001076 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 907237001077 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 907237001078 S-adenosylmethionine binding site [chemical binding]; other site 907237001079 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 907237001080 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 907237001081 active site 907237001082 phosphorylation site [posttranslational modification] 907237001083 intermolecular recognition site; other site 907237001084 dimerization interface [polypeptide binding]; other site 907237001085 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237001086 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 907237001087 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Region: gidB; TIGR00138 907237001088 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 907237001089 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 907237001090 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 907237001091 sec-independent translocase; Provisional; Region: PRK04098 907237001092 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 907237001093 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 907237001094 Walker A motif; other site 907237001095 ATP binding site [chemical binding]; other site 907237001096 Walker B motif; other site 907237001097 arginine finger; other site 907237001098 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 907237001099 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 907237001100 oligomerization interface [polypeptide binding]; other site 907237001101 active site 907237001102 metal binding site [ion binding]; metal-binding site 907237001103 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237001104 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237001105 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 907237001106 septum formation inhibitor; Reviewed; Region: minC; PRK00556 907237001107 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 907237001108 UDP-3-0-acyl N-acetylglucosamine deacetylase; Region: lpxC; TIGR00325 907237001109 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 907237001110 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 907237001111 homoserine kinase; Region: thrB; TIGR00191 907237001112 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 907237001113 Predicted nucleic-acid-binding protein implicated in transcription termination [Transcription]; Region: COG2740 907237001114 putative RNA binding cleft [nucleotide binding]; other site 907237001115 translation initiation factor IF-2; Region: IF-2; TIGR00487 907237001116 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 907237001117 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 907237001118 G1 box; other site 907237001119 putative GEF interaction site [polypeptide binding]; other site 907237001120 GTP/Mg2+ binding site [chemical binding]; other site 907237001121 Switch I region; other site 907237001122 G2 box; other site 907237001123 G3 box; other site 907237001124 Switch II region; other site 907237001125 G4 box; other site 907237001126 G5 box; other site 907237001127 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 907237001128 Translation-initiation factor 2; Region: IF-2; pfam11987 907237001129 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 907237001130 Ribosome-binding factor A; Region: RBFA; cl00542 907237001131 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 907237001132 Sm and related proteins; Region: Sm_like; cl00259 907237001133 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 907237001134 putative oligomer interface [polypeptide binding]; other site 907237001135 putative RNA binding site [nucleotide binding]; other site 907237001136 acetyl-CoA synthetase; Provisional; Region: PRK00174 907237001137 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 907237001138 active site 907237001139 CoA binding site [chemical binding]; other site 907237001140 acyl-activating enzyme (AAE) consensus motif; other site 907237001141 AMP binding site [chemical binding]; other site 907237001142 acetate binding site [chemical binding]; other site 907237001143 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 907237001144 putative active site [active] 907237001145 putative metal binding site [ion binding]; other site 907237001146 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 907237001147 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 907237001148 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 907237001149 active site 907237001150 intermolecular recognition site; other site 907237001151 dimerization interface [polypeptide binding]; other site 907237001152 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 907237001153 DNA binding site [nucleotide binding] 907237001154 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 907237001155 DHH family; Region: DHH; pfam01368 907237001156 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 907237001157 FHIPEP family; Region: FHIPEP; pfam00771 907237001158 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 907237001159 16S/18S rRNA binding site [nucleotide binding]; other site 907237001160 S13e-L30e interaction site [polypeptide binding]; other site 907237001161 25S rRNA binding site [nucleotide binding]; other site 907237001162 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 907237001163 O-Antigen ligase; Region: Wzy_C; pfam04932 907237001164 Dehydroquinase class II; Region: DHquinase_II; pfam01220 907237001165 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 907237001166 trimer interface [polypeptide binding]; other site 907237001167 active site 907237001168 dimer interface [polypeptide binding]; other site 907237001169 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 907237001170 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 907237001171 active site 907237001172 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 907237001173 catalytic center binding site [active] 907237001174 ATP binding site [chemical binding]; other site 907237001175 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 907237001176 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 907237001177 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 907237001178 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 907237001179 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 907237001180 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 907237001181 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 907237001182 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 907237001183 DNA binding residues [nucleotide binding] 907237001184 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 907237001185 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 907237001186 flagellar motor switch protein FliY; Validated; Region: PRK08432 907237001187 flagellar motor switch protein FliN; Region: fliN; TIGR02480 907237001188 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 907237001189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 907237001190 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 907237001191 metal binding site 2 [ion binding]; metal-binding site 907237001192 putative DNA binding helix; other site 907237001193 metal binding site 1 [ion binding]; metal-binding site 907237001194 dimer interface [polypeptide binding]; other site 907237001195 structural Zn2+ binding site [ion binding]; other site 907237001196 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 907237001197 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 907237001198 Walker A motif; other site 907237001199 ATP binding site [chemical binding]; other site 907237001200 Walker B motif; other site 907237001201 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 907237001202 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 907237001203 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 907237001204 DNA binding residues [nucleotide binding] 907237001205 putative dimer interface [polypeptide binding]; other site 907237001206 chaperone protein DnaJ; Provisional; Region: PRK14299 907237001207 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 907237001208 HSP70 interaction site [polypeptide binding]; other site 907237001209 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 907237001210 substrate binding site [polypeptide binding]; other site 907237001211 dimer interface [polypeptide binding]; other site 907237001212 5'-3' exonuclease; Provisional; Region: PRK14976 907237001213 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 907237001214 putative active site [active] 907237001215 Helix-hairpin-helix class 2 (Pol1 family) motifs; Region: HhH2; smart00279 907237001216 DNA binding site [nucleotide binding] 907237001217 metal binding site [ion binding]; metal-binding site 907237001218 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 907237001219 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 907237001220 active site 907237001221 dimerization interface [polypeptide binding]; other site 907237001222 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 907237001223 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 907237001224 substrate binding site; other site 907237001225 dimer interface; other site 907237001226 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 907237001227 homotrimer interaction site [polypeptide binding]; other site 907237001228 zinc binding site [ion binding]; other site 907237001229 CDP-binding sites; other site 907237001230 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 907237001231 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 907237001232 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 907237001233 protein binding site [polypeptide binding]; other site 907237001234 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 907237001235 protein binding site [polypeptide binding]; other site 907237001236 S-methylmethionine transporter; Provisional; Region: PRK11387 907237001237 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 907237001238 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 907237001239 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 907237001240 putative NAD(P) binding site [chemical binding]; other site 907237001241 active site 907237001242 dihydrodipicolinate synthase; Region: dapA; TIGR00674 907237001243 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 907237001244 dimer interface [polypeptide binding]; other site 907237001245 active site 907237001246 catalytic residue [active] 907237001247 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 907237001248 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 907237001249 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 907237001250 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 907237001251 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 907237001252 quinone interaction residues [chemical binding]; other site 907237001253 active site 907237001254 catalytic residues [active] 907237001255 FMN binding site [chemical binding]; other site 907237001256 substrate binding site [chemical binding]; other site 907237001257 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 907237001258 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 907237001259 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 907237001260 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 907237001261 putative domain interface [polypeptide binding]; other site 907237001262 putative active site [active] 907237001263 catalytic site [active] 907237001264 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 907237001265 putative active site [active] 907237001266 putative domain interface [polypeptide binding]; other site 907237001267 catalytic site [active] 907237001268 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 907237001269 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 907237001270 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 907237001271 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 907237001272 Methyltransferase domain; Region: Methyltransf_26; pfam13659 907237001273 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 907237001274 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 907237001275 ATP binding site [chemical binding]; other site 907237001276 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 907237001277 putative Mg++ binding site [ion binding]; other site 907237001278 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 907237001279 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 907237001280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 907237001281 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 907237001282 putative metal binding site [ion binding]; other site 907237001283 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 907237001284 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 907237001285 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 907237001286 active site 907237001287 Zn binding site [ion binding]; other site 907237001288 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 907237001289 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 907237001290 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237001291 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 907237001292 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 907237001293 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 907237001294 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 907237001295 dimer interface [polypeptide binding]; other site 907237001296 conserved gate region; other site 907237001297 putative PBP binding loops; other site 907237001298 ABC-ATPase subunit interface; other site 907237001299 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907237001300 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 907237001301 Walker A/P-loop; other site 907237001302 ATP binding site [chemical binding]; other site 907237001303 Q-loop/lid; other site 907237001304 ABC transporter signature motif; other site 907237001305 Walker B; other site 907237001306 D-loop; other site 907237001307 H-loop/switch region; other site 907237001308 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 907237001309 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 907237001310 active site 907237001311 HIGH motif; other site 907237001312 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 907237001313 active site 907237001314 KMSKS motif; other site 907237001315 Enterocin A Immunity; Region: EntA_Immun; pfam08951 907237001316 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 907237001317 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237001318 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 907237001319 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 907237001320 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 907237001321 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 907237001322 G1 box; other site 907237001323 putative GEF interaction site [polypeptide binding]; other site 907237001324 GTP/Mg2+ binding site [chemical binding]; other site 907237001325 Switch I region; other site 907237001326 G2 box; other site 907237001327 G3 box; other site 907237001328 Switch II region; other site 907237001329 G4 box; other site 907237001330 G5 box; other site 907237001331 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 907237001332 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 907237001333 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 907237001334 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 907237001335 GIY-YIG motif/motif A; other site 907237001336 DNA binding site [nucleotide binding] 907237001337 active site 907237001338 catalytic site [active] 907237001339 metal binding site [ion binding]; metal-binding site 907237001340 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 907237001341 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 907237001342 cofactor binding site; other site 907237001343 DNA binding site [nucleotide binding] 907237001344 substrate interaction site [chemical binding]; other site 907237001345 potential frameshift: common BLAST hit: gi|254779149|ref|YP_003057254.1| putative non-functional type II restriction endonuclease 907237001346 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 907237001347 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 907237001348 putative heme binding pocket [chemical binding]; other site 907237001349 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 907237001350 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 907237001351 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 907237001352 Cation transport protein; Region: TrkH; cl17365 907237001353 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 907237001354 TrkA-N domain; Region: TrkA_N; pfam02254 907237001355 TrkA-C domain; Region: TrkA_C; pfam02080 907237001356 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 907237001357 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 907237001358 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 907237001359 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 907237001360 Mg++ binding site [ion binding]; other site 907237001361 putative catalytic motif [active] 907237001362 putative substrate binding site [chemical binding]; other site 907237001363 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 907237001364 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 907237001365 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 907237001366 Protein of unknown function (DUF493); Region: DUF493; pfam04359 907237001367 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 907237001368 active site 907237001369 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 907237001370 Na2 binding site [ion binding]; other site 907237001371 putative substrate binding site 1 [chemical binding]; other site 907237001372 Na binding site 1 [ion binding]; other site 907237001373 putative substrate binding site 2 [chemical binding]; other site 907237001374 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 907237001375 Na2 binding site [ion binding]; other site 907237001376 putative substrate binding site 1 [chemical binding]; other site 907237001377 Na binding site 1 [ion binding]; other site 907237001378 putative substrate binding site 2 [chemical binding]; other site 907237001379 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 907237001380 dimerization interface [polypeptide binding]; other site 907237001381 substrate binding site [chemical binding]; other site 907237001382 active site 907237001383 calcium binding site [ion binding]; other site 907237001384 DNA polymerase III, beta subunit; Region: dnan; TIGR00663 907237001385 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 907237001386 putative DNA binding surface [nucleotide binding]; other site 907237001387 dimer interface [polypeptide binding]; other site 907237001388 beta-clamp/translesion DNA polymerase binding surface; other site 907237001389 beta-clamp/clamp loader binding surface; other site 907237001390 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 907237001391 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 907237001392 Mg2+ binding site [ion binding]; other site 907237001393 G-X-G motif; other site 907237001394 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 907237001395 anchoring element; other site 907237001396 dimer interface [polypeptide binding]; other site 907237001397 ATP binding site [chemical binding]; other site 907237001398 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 907237001399 active site 907237001400 putative metal-binding site [ion binding]; other site 907237001401 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 907237001402 R.Pab1 restriction endonuclease; Region: RE_R_Pab1; pfam09522 907237001403 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 907237001404 Peptidase family M23; Region: Peptidase_M23; pfam01551 907237001405 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 907237001406 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 907237001407 dimer interface [polypeptide binding]; other site 907237001408 ADP-ribose binding site [chemical binding]; other site 907237001409 active site 907237001410 nudix motif; other site 907237001411 metal binding site [ion binding]; metal-binding site 907237001412 FAD binding domain; Region: FAD_binding_4; pfam01565 907237001413 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 907237001414 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 907237001415 dihydrodipicolinate reductase; Region: dapB; TIGR00036 907237001416 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 907237001417 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 907237001418 glutamine synthetase, type I; Region: GlnA; TIGR00653 907237001419 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 907237001420 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 907237001421 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 907237001422 Uncharacterized conserved protein [Function unknown]; Region: COG1479 907237001423 Protein of unknown function DUF262; Region: DUF262; pfam03235 907237001424 Protein of unknown function DUF262; Region: DUF262; pfam03235 907237001425 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 907237001426 Uncharacterized conserved protein [Function unknown]; Region: COG3586 907237001427 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 907237001428 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 907237001429 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 907237001430 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 907237001431 active site 907237001432 HslU subunit interaction site [polypeptide binding]; other site 907237001433 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 907237001434 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 907237001435 Walker A motif; other site 907237001436 ATP binding site [chemical binding]; other site 907237001437 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 907237001438 Walker B motif; other site 907237001439 arginine finger; other site 907237001440 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 907237001441 GTPase [General function prediction only]; Region: Era; COG1159 907237001442 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 907237001443 G1 box; other site 907237001444 GTP/Mg2+ binding site [chemical binding]; other site 907237001445 Switch I region; other site 907237001446 G2 box; other site 907237001447 Switch II region; other site 907237001448 G3 box; other site 907237001449 G4 box; other site 907237001450 G5 box; other site 907237001451 KH domain; Region: KH_2; pfam07650 907237001452 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 907237001453 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 907237001454 Sel1-like repeats; Region: SEL1; smart00671 907237001455 DNA topoisomerase I; Validated; Region: PRK06599 907237001456 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 907237001457 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 907237001458 Walker A motif; other site 907237001459 ATP binding site [chemical binding]; other site 907237001460 Walker B motif; other site 907237001461 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 907237001462 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 907237001463 ATP binding site [chemical binding]; other site 907237001464 Walker A motif; other site 907237001465 hexamer interface [polypeptide binding]; other site 907237001466 Walker B motif; other site 907237001467 CagZ; Region: CagZ; pfam09053 907237001468 DC-EC Repeat; Region: CagY_M; pfam07337 907237001469 DC-EC Repeat; Region: CagY_M; pfam07337 907237001470 DC-EC Repeat; Region: CagY_M; pfam07337 907237001471 DC-EC Repeat; Region: CagY_M; pfam07337 907237001472 DC-EC Repeat; Region: CagY_M; pfam07337 907237001473 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 907237001474 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 907237001475 Protein of unknown function (DUF3807); Region: DUF3807; pfam12720 907237001476 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 907237001477 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 907237001478 VirB7 interaction site; other site 907237001479 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 907237001480 Cag pathogenicity island protein Cag12; Region: Cag12; pfam13117 907237001481 prolyl-tRNA synthetase; Provisional; Region: PRK08661 907237001482 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 907237001483 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 907237001484 CagA exotoxin; Region: CagA; pfam03507 907237001485 potential frameshift: common BLAST hit: gi|15611893|ref|NP_223544.1| IS606 transposase 907237001486 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 907237001487 transcription termination factor Rho; Provisional; Region: rho; PRK09376 907237001488 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 907237001489 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 907237001490 RNA binding site [nucleotide binding]; other site 907237001491 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 907237001492 multimer interface [polypeptide binding]; other site 907237001493 Walker A motif; other site 907237001494 ATP binding site [chemical binding]; other site 907237001495 Walker B motif; other site 907237001496 Ribosomal protein L31; Region: Ribosomal_L31; pfam01197 907237001497 Predicted methyltransferases [General function prediction only]; Region: COG0313 907237001498 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 907237001499 putative SAM binding site [chemical binding]; other site 907237001500 putative homodimer interface [polypeptide binding]; other site 907237001501 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 907237001502 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 907237001503 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 907237001504 acetyl-CoA carboxylase, carboxyl transferase, alpha subunit; Region: accA; TIGR00513 907237001505 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 907237001506 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 907237001507 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 907237001508 dimer interface [polypeptide binding]; other site 907237001509 active site 907237001510 acyl carrier protein; Provisional; Region: acpP; PRK00982 907237001511 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 907237001512 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 907237001513 NAD(P) binding site [chemical binding]; other site 907237001514 active site 907237001515 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 907237001516 Predicted membrane protein [Function unknown]; Region: COG3059 907237001517 diaminopimelate epimerase; Region: DapF; TIGR00652 907237001518 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 907237001519 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 907237001520 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 907237001521 Domain of unknown function DUF20; Region: UPF0118; pfam01594 907237001522 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 907237001523 GTP-binding protein YchF; Reviewed; Region: PRK09601 907237001524 YchF GTPase; Region: YchF; cd01900 907237001525 G1 box; other site 907237001526 GTP/Mg2+ binding site [chemical binding]; other site 907237001527 Switch I region; other site 907237001528 G2 box; other site 907237001529 Switch II region; other site 907237001530 G3 box; other site 907237001531 G4 box; other site 907237001532 G5 box; other site 907237001533 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 907237001534 multifunctional aminopeptidase A; Provisional; Region: PRK00913 907237001535 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 907237001536 interface (dimer of trimers) [polypeptide binding]; other site 907237001537 Substrate-binding/catalytic site; other site 907237001538 Zn-binding sites [ion binding]; other site 907237001539 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 907237001540 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 907237001541 active site 907237001542 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 907237001543 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 907237001544 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 907237001545 Peptidase family M50; Region: Peptidase_M50; pfam02163 907237001546 active site 907237001547 putative substrate binding region [chemical binding]; other site 907237001548 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 907237001549 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 907237001550 Catalytic site [active] 907237001551 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 907237001552 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 907237001553 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 907237001554 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 907237001555 homodimer interface [polypeptide binding]; other site 907237001556 NADP binding site [chemical binding]; other site 907237001557 substrate binding site [chemical binding]; other site 907237001558 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 907237001559 Sulfatase; Region: Sulfatase; pfam00884 907237001560 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 907237001561 BNR repeat-like domain; Region: BNR_2; pfam13088 907237001562 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 907237001563 active site 907237001564 substrate binding pocket [chemical binding]; other site 907237001565 dimer interface [polypeptide binding]; other site 907237001566 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 907237001567 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 907237001568 flagellar motor switch protein; Validated; Region: PRK08433 907237001569 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 907237001570 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 907237001571 minor groove reading motif; other site 907237001572 helix-hairpin-helix signature motif; other site 907237001573 substrate binding pocket [chemical binding]; other site 907237001574 active site 907237001575 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 907237001576 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 907237001577 Protein of unknown function; Region: DUF3971; pfam13116 907237001578 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 907237001579 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 907237001580 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 907237001581 dimerization interface [polypeptide binding]; other site 907237001582 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 907237001583 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 907237001584 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 907237001585 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 907237001586 dimer interface [polypeptide binding]; other site 907237001587 PYR/PP interface [polypeptide binding]; other site 907237001588 TPP binding site [chemical binding]; other site 907237001589 substrate binding site [chemical binding]; other site 907237001590 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 907237001591 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 907237001592 TPP-binding site [chemical binding]; other site 907237001593 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 907237001594 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 907237001595 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 907237001596 tumor necrosis factor alpha-inducing protein; Reviewed; Region: PRK12303 907237001597 Transglycosylase; Region: Transgly; pfam00912 907237001598 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 907237001599 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 907237001600 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 907237001601 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 907237001602 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 907237001603 catalytic residue [active] 907237001604 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 907237001605 dimer interface [polypeptide binding]; other site 907237001606 putative CheW interface [polypeptide binding]; other site 907237001607 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 907237001608 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 907237001609 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 907237001610 Walker A/P-loop; other site 907237001611 ATP binding site [chemical binding]; other site 907237001612 Q-loop/lid; other site 907237001613 ABC transporter signature motif; other site 907237001614 Walker B; other site 907237001615 D-loop; other site 907237001616 H-loop/switch region; other site 907237001617 flagellin A; Reviewed; Region: PRK12584 907237001618 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 907237001619 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 907237001620 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 907237001621 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 907237001622 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 907237001623 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 907237001624 minor groove reading motif; other site 907237001625 helix-hairpin-helix signature motif; other site 907237001626 active site 907237001627 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 907237001628 substrate binding site [chemical binding]; other site 907237001629 active site 907237001630 Outer membrane efflux protein; Region: OEP; pfam02321 907237001631 Outer membrane efflux protein; Region: OEP; pfam02321 907237001632 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 907237001633 HlyD family secretion protein; Region: HlyD_3; pfam13437 907237001634 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 907237001635 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237001636 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 907237001637 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907237001638 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907237001639 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907237001640 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907237001641 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 907237001642 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907237001643 Autotransporter beta-domain; Region: Autotransporter; pfam03797 907237001644 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 907237001645 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907237001646 Walker A/P-loop; other site 907237001647 ATP binding site [chemical binding]; other site 907237001648 Q-loop/lid; other site 907237001649 ABC transporter signature motif; other site 907237001650 Walker B; other site 907237001651 D-loop; other site 907237001652 H-loop/switch region; other site 907237001653 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 907237001654 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 907237001655 nucleotide binding pocket [chemical binding]; other site 907237001656 K-X-D-G motif; other site 907237001657 catalytic site [active] 907237001658 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 907237001659 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 907237001660 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 907237001661 Dimer interface [polypeptide binding]; other site 907237001662 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 907237001663 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 907237001664 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 907237001665 active site 907237001666 phosphorylation site [posttranslational modification] 907237001667 intermolecular recognition site; other site 907237001668 dimerization interface [polypeptide binding]; other site 907237001669 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 907237001670 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 907237001671 dimer interface [polypeptide binding]; other site 907237001672 anticodon binding site; other site 907237001673 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 907237001674 homodimer interface [polypeptide binding]; other site 907237001675 motif 1; other site 907237001676 active site 907237001677 motif 2; other site 907237001678 GAD domain; Region: GAD; pfam02938 907237001679 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 907237001680 active site 907237001681 motif 3; other site 907237001682 adenylate kinase; Reviewed; Region: adk; PRK00279 907237001683 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 907237001684 AMP-binding site [chemical binding]; other site 907237001685 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 907237001686 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 907237001687 Glycosyltransferase involved in LPS biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG3306 907237001688 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 907237001689 dimer interface [polypeptide binding]; other site 907237001690 substrate binding site [chemical binding]; other site 907237001691 metal binding sites [ion binding]; metal-binding site 907237001692 MutS2 family protein; Region: mutS2; TIGR01069 907237001693 ATPase domain of DNA mismatch repair MUTS family; Region: MUTSac; smart00534 907237001694 Walker A/P-loop; other site 907237001695 ATP binding site [chemical binding]; other site 907237001696 Q-loop/lid; other site 907237001697 ABC transporter signature motif; other site 907237001698 Walker B; other site 907237001699 D-loop; other site 907237001700 H-loop/switch region; other site 907237001701 Smr domain; Region: Smr; pfam01713 907237001702 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 907237001703 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 907237001704 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 907237001705 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 907237001706 hypothetical protein; Provisional; Region: PRK05839 907237001707 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 907237001708 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907237001709 homodimer interface [polypeptide binding]; other site 907237001710 catalytic residue [active] 907237001711 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 907237001712 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 907237001713 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 907237001714 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 907237001715 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 907237001716 putative trimer interface [polypeptide binding]; other site 907237001717 putative CoA binding site [chemical binding]; other site 907237001718 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 907237001719 Sel1-like repeats; Region: SEL1; smart00671 907237001720 Sel1-like repeats; Region: SEL1; smart00671 907237001721 Sel1 repeat; Region: Sel1; cl02723 907237001722 Sel1-like repeats; Region: SEL1; smart00671 907237001723 Uncharacterized conserved protein [Function unknown]; Region: COG1479 907237001724 Protein of unknown function DUF262; Region: DUF262; pfam03235 907237001725 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 907237001726 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 907237001727 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 907237001728 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 907237001729 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 907237001730 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 907237001731 Ni,Fe-hydrogenase I cytochrome b subunit [Energy production and conversion]; Region: HyaC; COG1969 907237001732 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 907237001733 nickel binding site [ion binding]; other site 907237001734 putative substrate-binding site; other site 907237001735 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237001736 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 907237001737 Ligand Binding Site [chemical binding]; other site 907237001738 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 907237001739 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 907237001740 active site 907237001741 NTP binding site [chemical binding]; other site 907237001742 metal binding triad [ion binding]; metal-binding site 907237001743 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 907237001744 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 907237001745 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 907237001746 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 907237001747 dimer interface [polypeptide binding]; other site 907237001748 FMN binding site [chemical binding]; other site 907237001749 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 907237001750 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 907237001751 active site 907237001752 HIGH motif; other site 907237001753 nucleotide binding site [chemical binding]; other site 907237001754 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 907237001755 active site 907237001756 KMSKS motif; other site 907237001757 YGGT family; Region: YGGT; pfam02325 907237001758 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 907237001759 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 907237001760 N-acetyl-D-glucosamine binding site [chemical binding]; other site 907237001761 catalytic residue [active] 907237001762 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 907237001763 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 907237001764 active site 907237001765 tetramer interface; other site 907237001766 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 907237001767 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 907237001768 hinge; other site 907237001769 active site 907237001770 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 907237001771 Aspartase; Region: Aspartase; cd01357 907237001772 active sites [active] 907237001773 tetramer interface [polypeptide binding]; other site 907237001774 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_2; cd10034 907237001775 putative uracil binding site [chemical binding]; other site 907237001776 putative active site [active] 907237001777 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 907237001778 phosphoserine phosphatase SerB; Region: serB; TIGR00338 907237001779 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 907237001780 motif II; other site 907237001781 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 907237001782 Ferritin-like domain; Region: Ferritin; pfam00210 907237001783 ferroxidase diiron center [ion binding]; other site 907237001784 hypothetical protein; Provisional; Region: PRK08444 907237001785 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 907237001786 FeS/SAM binding site; other site 907237001787 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 907237001788 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 907237001789 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 907237001790 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 907237001791 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 907237001792 Surface antigen; Region: Bac_surface_Ag; pfam01103 907237001793 hypothetical protein; Provisional; Region: PRK08445 907237001794 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 907237001795 FeS/SAM binding site; other site 907237001796 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 907237001797 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 907237001798 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 907237001799 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 907237001800 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 907237001801 GatB domain; Region: GatB_Yqey; smart00845 907237001802 SurA N-terminal domain; Region: SurA_N; pfam09312 907237001803 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 907237001804 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]; Region: COG1439 907237001805 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 907237001806 RNA/DNA hybrid binding site [nucleotide binding]; other site 907237001807 active site 907237001808 ribonuclease III; Reviewed; Region: rnc; PRK00102 907237001809 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 907237001810 dimerization interface [polypeptide binding]; other site 907237001811 active site 907237001812 metal binding site [ion binding]; metal-binding site 907237001813 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 907237001814 dsRNA binding site [nucleotide binding]; other site 907237001815 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 907237001816 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 907237001817 Tetramer interface [polypeptide binding]; other site 907237001818 active site 907237001819 FMN-binding site [chemical binding]; other site 907237001820 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 907237001821 oxygen-independent coproporphyrinogen III oxidase; Region: hemN; TIGR00538 907237001822 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 907237001823 FeS/SAM binding site; other site 907237001824 HemN C-terminal domain; Region: HemN_C; pfam06969 907237001825 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 907237001826 Cysteine-rich domain; Region: CCG; pfam02754 907237001827 Cysteine-rich domain; Region: CCG; pfam02754 907237001828 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237001829 aspartate aminotransferase; Provisional; Region: PRK05764 907237001830 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 907237001831 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907237001832 homodimer interface [polypeptide binding]; other site 907237001833 catalytic residue [active] 907237001834 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 907237001835 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 907237001836 active site 907237001837 DNA binding site [nucleotide binding] 907237001838 Int/Topo IB signature motif; other site 907237001839 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 907237001840 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 907237001841 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 907237001842 DNA binding site [nucleotide binding] 907237001843 active site 907237001844 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 907237001845 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 907237001846 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 907237001847 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 907237001848 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 907237001849 ATP cone domain; Region: ATP-cone; pfam03477 907237001850 Class I ribonucleotide reductase; Region: RNR_I; cd01679 907237001851 active site 907237001852 dimer interface [polypeptide binding]; other site 907237001853 catalytic residues [active] 907237001854 effector binding site; other site 907237001855 R2 peptide binding site; other site 907237001856 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 907237001857 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 907237001858 Substrate binding site; other site 907237001859 Mg++ binding site; other site 907237001860 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 907237001861 active site 907237001862 substrate binding site [chemical binding]; other site 907237001863 CoA binding site [chemical binding]; other site 907237001864 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 907237001865 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 907237001866 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 907237001867 N-terminal plug; other site 907237001868 ligand-binding site [chemical binding]; other site 907237001869 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 907237001870 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 907237001871 G1 box; other site 907237001872 GTP/Mg2+ binding site [chemical binding]; other site 907237001873 Switch I region; other site 907237001874 G2 box; other site 907237001875 G3 box; other site 907237001876 Switch II region; other site 907237001877 G4 box; other site 907237001878 G5 box; other site 907237001879 Nucleoside recognition; Region: Gate; pfam07670 907237001880 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 907237001881 Nucleoside recognition; Region: Gate; pfam07670 907237001882 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 907237001883 active site 907237001884 catalytic site [active] 907237001885 substrate binding site [chemical binding]; other site 907237001886 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 907237001887 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 907237001888 DNA methylase; Region: N6_N4_Mtase; pfam01555 907237001889 CfrBI restriction endonuclease; Region: RE_CfrBI; pfam09516 907237001890 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB [DNA replication, recombination, and repair]; Region: COG3298 907237001891 putative acyltransferase; Provisional; Region: PRK05790 907237001892 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 907237001893 dimer interface [polypeptide binding]; other site 907237001894 active site 907237001895 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 907237001896 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 907237001897 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 907237001898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3528 907237001899 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 907237001900 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 907237001901 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 907237001902 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 907237001903 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 907237001904 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 907237001905 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 907237001906 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 907237001907 DNA gyrase subunit A; Validated; Region: PRK05560 907237001908 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 907237001909 CAP-like domain; other site 907237001910 active site 907237001911 primary dimer interface [polypeptide binding]; other site 907237001912 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 907237001913 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 907237001914 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 907237001915 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 907237001916 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 907237001917 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 907237001918 Response regulator receiver domain; Region: Response_reg; pfam00072 907237001919 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 907237001920 active site 907237001921 phosphorylation site [posttranslational modification] 907237001922 intermolecular recognition site; other site 907237001923 dimerization interface [polypeptide binding]; other site 907237001924 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 907237001925 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 907237001926 Walker A motif; other site 907237001927 ATP binding site [chemical binding]; other site 907237001928 Walker B motif; other site 907237001929 arginine finger; other site 907237001930 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 907237001931 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 907237001932 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 907237001933 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 907237001934 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237001935 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 907237001936 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 907237001937 Uncharacterized conserved protein [Function unknown]; Region: COG1912 907237001938 potential frameshift: common BLAST hit: gi|308184719|ref|YP_003928852.1| putative outer membrane protein HomB 907237001939 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 907237001940 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 907237001941 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237001942 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 907237001943 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 907237001944 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 907237001945 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 907237001946 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 907237001947 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 907237001948 Walker A/P-loop; other site 907237001949 ATP binding site [chemical binding]; other site 907237001950 Q-loop/lid; other site 907237001951 ABC transporter signature motif; other site 907237001952 Walker B; other site 907237001953 D-loop; other site 907237001954 H-loop/switch region; other site 907237001955 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 907237001956 DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]; Region: DnaX; COG2812 907237001957 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 907237001958 Walker A motif; other site 907237001959 ATP binding site [chemical binding]; other site 907237001960 Walker B motif; other site 907237001961 arginine finger; other site 907237001962 Lysine efflux permease [General function prediction only]; Region: COG1279 907237001963 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 907237001964 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 907237001965 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237001966 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 907237001967 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 907237001968 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 907237001969 active site 907237001970 homodimer interface [polypeptide binding]; other site 907237001971 homotetramer interface [polypeptide binding]; other site 907237001972 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237001973 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 907237001974 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 907237001975 FMN binding site [chemical binding]; other site 907237001976 active site 907237001977 catalytic residues [active] 907237001978 substrate binding site [chemical binding]; other site 907237001979 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 907237001980 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 907237001981 Ligand Binding Site [chemical binding]; other site 907237001982 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 907237001983 G1 box; other site 907237001984 GTP/Mg2+ binding site [chemical binding]; other site 907237001985 Switch I region; other site 907237001986 G3 box; other site 907237001987 Switch II region; other site 907237001988 G4 box; other site 907237001989 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 907237001990 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 907237001991 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 907237001992 FeS/SAM binding site; other site 907237001993 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 907237001994 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 907237001995 active site 907237001996 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 907237001997 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 907237001998 catalytic residue [active] 907237001999 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 907237002000 tetramer interfaces [polypeptide binding]; other site 907237002001 binuclear metal-binding site [ion binding]; other site 907237002002 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 907237002003 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 907237002004 ATP-grasp domain; Region: ATP-grasp_4; cl17255 907237002005 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 907237002006 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 907237002007 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 907237002008 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 907237002009 nucleotide binding site/active site [active] 907237002010 HIT family signature motif; other site 907237002011 catalytic residue [active] 907237002012 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 907237002013 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 907237002014 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 907237002015 active site 907237002016 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 907237002017 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 907237002018 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 907237002019 active site 907237002020 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 907237002021 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 907237002022 Interdomain contacts; other site 907237002023 Cytokine receptor motif; other site 907237002024 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 907237002025 Interdomain contacts; other site 907237002026 Cytokine receptor motif; other site 907237002027 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 907237002028 Interdomain contacts; other site 907237002029 Cytokine receptor motif; other site 907237002030 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 907237002031 S-adenosylmethionine binding site [chemical binding]; other site 907237002032 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 907237002033 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 907237002034 Walker A/P-loop; other site 907237002035 ATP binding site [chemical binding]; other site 907237002036 Q-loop/lid; other site 907237002037 ABC transporter signature motif; other site 907237002038 Walker B; other site 907237002039 D-loop; other site 907237002040 H-loop/switch region; other site 907237002041 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 907237002042 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 907237002043 Peptidase family M23; Region: Peptidase_M23; pfam01551 907237002044 flagellar protein FlaG; Provisional; Region: PRK08452 907237002045 flagellar capping protein; Validated; Region: fliD; PRK08453 907237002046 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 907237002047 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 907237002048 flagellar biosynthetic protein FliS; Region: fliS; TIGR00208 907237002049 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 907237002050 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 907237002051 putative ATP binding site [chemical binding]; other site 907237002052 putative substrate interface [chemical binding]; other site 907237002053 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 907237002054 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 907237002055 putative active site; other site 907237002056 catalytic triad [active] 907237002057 putative dimer interface [polypeptide binding]; other site 907237002058 Predicted permease [General function prediction only]; Region: COG2056 907237002059 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 907237002060 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 907237002061 putative efflux protein, MATE family; Region: matE; TIGR00797 907237002062 phosphodiesterase; Provisional; Region: PRK12704 907237002063 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 907237002064 nucleic acid binding region [nucleotide binding]; other site 907237002065 G-X-X-G motif; other site 907237002066 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 907237002067 Zn2+ binding site [ion binding]; other site 907237002068 Mg2+ binding site [ion binding]; other site 907237002069 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 907237002070 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 907237002071 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 907237002072 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 907237002073 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 907237002074 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 907237002075 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 907237002076 FeS/SAM binding site; other site 907237002077 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 907237002078 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 907237002079 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 907237002080 GTP binding site; other site 907237002081 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 907237002082 flagellar biosynthetic protein FlhB; Region: flhB; TIGR00328 907237002083 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 907237002084 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 907237002085 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 907237002086 active site 907237002087 metal binding site [ion binding]; metal-binding site 907237002088 Nitronate monooxygenase; Region: NMO; pfam03060 907237002089 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 907237002090 FMN binding site [chemical binding]; other site 907237002091 substrate binding site [chemical binding]; other site 907237002092 putative catalytic residue [active] 907237002093 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 907237002094 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 907237002095 active site 907237002096 HIGH motif; other site 907237002097 dimer interface [polypeptide binding]; other site 907237002098 KMSKS motif; other site 907237002099 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 907237002100 RNA binding surface [nucleotide binding]; other site 907237002101 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 907237002102 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 907237002103 Zn2+ binding site [ion binding]; other site 907237002104 Mg2+ binding site [ion binding]; other site 907237002105 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 907237002106 synthetase active site [active] 907237002107 NTP binding site [chemical binding]; other site 907237002108 metal binding site [ion binding]; metal-binding site 907237002109 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 907237002110 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 907237002111 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 907237002112 putative nucleotide binding site [chemical binding]; other site 907237002113 uridine monophosphate binding site [chemical binding]; other site 907237002114 homohexameric interface [polypeptide binding]; other site 907237002115 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 907237002116 aconitate hydratase 2; Region: acnB; TIGR00117 907237002117 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 907237002118 substrate binding site [chemical binding]; other site 907237002119 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 907237002120 substrate binding site [chemical binding]; other site 907237002121 ligand binding site [chemical binding]; other site 907237002122 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 907237002123 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 907237002124 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 907237002125 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 907237002126 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 907237002127 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 907237002128 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 907237002129 nucleotide binding region [chemical binding]; other site 907237002130 ATP-binding site [chemical binding]; other site 907237002131 SEC-C motif; Region: SEC-C; pfam02810 907237002132 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 907237002133 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 907237002134 FtsX-like permease family; Region: FtsX; pfam02687 907237002135 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 907237002136 potential frameshift: common BLAST hit: gi|188527306|ref|YP_001909993.1| anti-codon nuclease masking agent (prrB) 907237002137 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 907237002138 metal-binding site [ion binding] 907237002139 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 907237002140 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 907237002141 Soluble P-type ATPase [General function prediction only]; Region: COG4087 907237002142 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 907237002143 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 907237002144 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 907237002145 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 907237002146 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 907237002147 active site 907237002148 catalytic residues [active] 907237002149 metal binding site [ion binding]; metal-binding site 907237002150 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 907237002151 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 907237002152 oligomer interface [polypeptide binding]; other site 907237002153 active site residues [active] 907237002154 trigger factor; Provisional; Region: tig; PRK01490 907237002155 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 907237002156 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 907237002157 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237002158 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 907237002159 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 907237002160 trimer interface [polypeptide binding]; other site 907237002161 dimer interface [polypeptide binding]; other site 907237002162 putative active site [active] 907237002163 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 907237002164 MPT binding site; other site 907237002165 trimer interface [polypeptide binding]; other site 907237002166 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 907237002167 MoaE homodimer interface [polypeptide binding]; other site 907237002168 MoaD interaction [polypeptide binding]; other site 907237002169 active site residues [active] 907237002170 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 907237002171 MoaE interaction surface [polypeptide binding]; other site 907237002172 MoeB interaction surface [polypeptide binding]; other site 907237002173 thiocarboxylated glycine; other site 907237002174 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 907237002175 dimerization interface [polypeptide binding]; other site 907237002176 active site 907237002177 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 907237002178 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 907237002179 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 907237002180 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 907237002181 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 907237002182 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 907237002183 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 907237002184 N-terminal plug; other site 907237002185 ligand-binding site [chemical binding]; other site 907237002186 holo-[acyl-carrier-protein] synthase; Region: acpS; TIGR00516 907237002187 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 907237002188 RNA methyltransferase, RsmD family; Region: TIGR00095 907237002189 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 907237002190 Uncharacterized conserved protein [Function unknown]; Region: COG1565 907237002191 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 907237002192 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 907237002193 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 907237002194 ATP binding site [chemical binding]; other site 907237002195 substrate interface [chemical binding]; other site 907237002196 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 907237002197 flagellar motor protein MotA; Validated; Region: PRK08456 907237002198 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 907237002199 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 907237002200 ligand binding site [chemical binding]; other site 907237002201 potential frameshift: common BLAST hit: gi|308184603|ref|YP_003928736.1| osmoprotection protein (proWX) 907237002202 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 907237002203 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907237002204 Walker A/P-loop; other site 907237002205 ATP binding site [chemical binding]; other site 907237002206 Q-loop/lid; other site 907237002207 ABC transporter signature motif; other site 907237002208 Walker B; other site 907237002209 D-loop; other site 907237002210 H-loop/switch region; other site 907237002211 excinuclease ABC, C subunit; Region: uvrC; TIGR00194 907237002212 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 907237002213 GIY-YIG motif/motif A; other site 907237002214 active site 907237002215 catalytic site [active] 907237002216 putative DNA binding site [nucleotide binding]; other site 907237002217 metal binding site [ion binding]; metal-binding site 907237002218 UvrB/uvrC motif; Region: UVR; pfam02151 907237002219 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 907237002220 homoserine dehydrogenase; Provisional; Region: PRK06349 907237002221 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 907237002222 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 907237002223 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 907237002224 Uncharacterized protein family UPF0102; Region: UPF0102; pfam02021 907237002225 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 907237002226 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 907237002227 catalytic residues [active] 907237002228 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 907237002229 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 907237002230 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 907237002231 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 907237002232 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 907237002233 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 907237002234 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 907237002235 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 907237002236 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 907237002237 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 907237002238 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 907237002239 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 907237002240 active site 907237002241 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, A subunit; Region: gatA; TIGR00132 907237002242 indole acetimide hydrolase; Validated; Region: PRK07488 907237002243 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 907237002244 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 907237002245 CoA-binding site [chemical binding]; other site 907237002246 spermidine synthase; Provisional; Region: speE; PRK00536 907237002247 spermidine synthase; Provisional; Region: PRK00811 907237002248 GTP-binding protein Der; Reviewed; Region: PRK00093 907237002249 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 907237002250 G1 box; other site 907237002251 GTP/Mg2+ binding site [chemical binding]; other site 907237002252 Switch I region; other site 907237002253 G2 box; other site 907237002254 Switch II region; other site 907237002255 G3 box; other site 907237002256 G4 box; other site 907237002257 G5 box; other site 907237002258 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 907237002259 G1 box; other site 907237002260 GTP/Mg2+ binding site [chemical binding]; other site 907237002261 Switch I region; other site 907237002262 G2 box; other site 907237002263 G3 box; other site 907237002264 Switch II region; other site 907237002265 G4 box; other site 907237002266 G5 box; other site 907237002267 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 907237002268 IHF dimer interface [polypeptide binding]; other site 907237002269 IHF - DNA interface [nucleotide binding]; other site 907237002270 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 907237002271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 907237002272 potential frameshift: common BLAST hit: gi|108563249|ref|YP_627565.1| outer membrane protein P1 907237002273 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 907237002274 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 907237002275 NAD(P) binding site [chemical binding]; other site 907237002276 homodimer interface [polypeptide binding]; other site 907237002277 substrate binding site [chemical binding]; other site 907237002278 active site 907237002279 phosphopantothenoylcysteine decarboxylase / phosphopantothenate--cysteine ligase; Region: coaBC_dfp; TIGR00521 907237002280 Flavoprotein; Region: Flavoprotein; pfam02441 907237002281 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 907237002282 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 907237002283 thiamine phosphate binding site [chemical binding]; other site 907237002284 active site 907237002285 pyrophosphate binding site [ion binding]; other site 907237002286 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 907237002287 dimer interface [polypeptide binding]; other site 907237002288 substrate binding site [chemical binding]; other site 907237002289 ATP binding site [chemical binding]; other site 907237002290 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 907237002291 substrate binding site [chemical binding]; other site 907237002292 multimerization interface [polypeptide binding]; other site 907237002293 ATP binding site [chemical binding]; other site 907237002294 potential frameshift: common BLAST hit: gi|208434759|ref|YP_002266425.1| type I restriction enzyme R protein 907237002295 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 907237002296 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 907237002297 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 907237002298 potential frameshift: common BLAST hit: gi|15645469|ref|NP_207643.1| type I restriction enzyme M protein (hsdM) 907237002299 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 907237002300 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 907237002301 active site 907237002302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2958 907237002303 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 907237002304 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907237002305 Walker A/P-loop; other site 907237002306 ATP binding site [chemical binding]; other site 907237002307 Q-loop/lid; other site 907237002308 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 907237002309 ABC transporter; Region: ABC_tran_2; pfam12848 907237002310 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 907237002311 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 907237002312 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 907237002313 active site 907237002314 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 907237002315 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 907237002316 dimer interface [polypeptide binding]; other site 907237002317 active site 907237002318 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 907237002319 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 907237002320 putative ribose interaction site [chemical binding]; other site 907237002321 putative ADP binding site [chemical binding]; other site 907237002322 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 907237002323 active site 907237002324 nucleotide binding site [chemical binding]; other site 907237002325 HIGH motif; other site 907237002326 KMSKS motif; other site 907237002327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 907237002328 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 907237002329 NAD(P) binding site [chemical binding]; other site 907237002330 active site 907237002331 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 907237002332 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 907237002333 active site 907237002334 motif I; other site 907237002335 motif II; other site 907237002336 Uncharacterized conserved protein [Function unknown]; Region: COG2836 907237002337 pantothenate kinase; Reviewed; Region: PRK13333 907237002338 PQQ-like domain; Region: PQQ_2; pfam13360 907237002339 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 907237002340 trimer interface [polypeptide binding]; other site 907237002341 active site 907237002342 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 907237002343 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 907237002344 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 907237002345 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 907237002346 lipid-A-disaccharide synthase; Region: lpxB; TIGR00215 907237002347 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK00564 907237002348 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 907237002349 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 907237002350 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 907237002351 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 907237002352 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 907237002353 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 907237002354 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 907237002355 alkylphosphonate utilization operon protein PhnA; Region: phnA; TIGR00686 907237002356 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 907237002357 PhnA protein; Region: PhnA; pfam03831 907237002358 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 907237002359 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 907237002360 tetramer interface [polypeptide binding]; other site 907237002361 heme binding pocket [chemical binding]; other site 907237002362 NADPH binding site [chemical binding]; other site 907237002363 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 907237002364 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 907237002365 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 907237002366 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 907237002367 active site 907237002368 putative DNA-binding cleft [nucleotide binding]; other site 907237002369 dimer interface [polypeptide binding]; other site 907237002370 Uncharacterized conserved protein [Function unknown]; Region: COG1432 907237002371 LabA_like proteins; Region: LabA_like; cd06167 907237002372 putative metal binding site [ion binding]; other site 907237002373 Holliday junction DNA helicase, RuvA subunit; Region: ruvA; TIGR00084 907237002374 RuvA N terminal domain; Region: RuvA_N; pfam01330 907237002375 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 907237002376 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 907237002377 MviN-like protein; Region: MVIN; pfam03023 907237002378 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 907237002379 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 907237002380 active site 907237002381 HIGH motif; other site 907237002382 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 907237002383 KMSKS motif; other site 907237002384 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 907237002385 Vacuolating cyotoxin; Region: VacA; pfam02691 907237002386 Autotransporter beta-domain; Region: Autotransporter; pfam03797 907237002387 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 907237002388 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 907237002389 Ligand binding site; other site 907237002390 metal-binding site 907237002391 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 907237002392 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 907237002393 Walker A/P-loop; other site 907237002394 ATP binding site [chemical binding]; other site 907237002395 Q-loop/lid; other site 907237002396 ABC transporter signature motif; other site 907237002397 Walker B; other site 907237002398 D-loop; other site 907237002399 H-loop/switch region; other site 907237002400 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 907237002401 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 907237002402 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 907237002403 ABC-ATPase subunit interface; other site 907237002404 dimer interface [polypeptide binding]; other site 907237002405 putative PBP binding regions; other site 907237002406 short chain dehydrogenase; Validated; Region: PRK06182 907237002407 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 907237002408 NADP binding site [chemical binding]; other site 907237002409 active site 907237002410 steroid binding site; other site 907237002411 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 907237002412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 907237002413 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237002414 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 907237002415 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 907237002416 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 907237002417 hydrogenase accessory protein HypB; Region: hypB; TIGR00073 907237002418 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 907237002419 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 907237002420 Acetokinase family; Region: Acetate_kinase; cl17229 907237002421 Acetokinase family; Region: Acetate_kinase; cl17229 907237002422 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 907237002423 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 907237002424 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 907237002425 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 907237002426 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 907237002427 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 907237002428 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 907237002429 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 907237002430 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 907237002431 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 907237002432 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 907237002433 S-adenosylmethionine binding site [chemical binding]; other site 907237002434 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 907237002435 Part of AAA domain; Region: AAA_19; pfam13245 907237002436 Family description; Region: UvrD_C_2; pfam13538 907237002437 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237002438 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237002439 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 907237002440 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 907237002441 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 907237002442 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 907237002443 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 907237002444 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 907237002445 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 907237002446 ATP-grasp domain; Region: ATP-grasp_4; cl17255 907237002447 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 907237002448 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 907237002449 ATP-grasp domain; Region: ATP-grasp_4; cl17255 907237002450 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 907237002451 IMP binding site; other site 907237002452 dimer interface [polypeptide binding]; other site 907237002453 interdomain contacts; other site 907237002454 partial ornithine binding site; other site 907237002455 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 907237002456 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 907237002457 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 907237002458 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 907237002459 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 907237002460 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907237002461 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907237002462 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 907237002463 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 907237002464 Autotransporter beta-domain; Region: Autotransporter; pfam03797 907237002465 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237002466 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 907237002467 active site 1 [active] 907237002468 dimer interface [polypeptide binding]; other site 907237002469 hexamer interface [polypeptide binding]; other site 907237002470 active site 2 [active] 907237002471 recombination protein RecR; Region: recR; TIGR00615 907237002472 RecR protein; Region: RecR; pfam02132 907237002473 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 907237002474 putative active site [active] 907237002475 putative metal-binding site [ion binding]; other site 907237002476 tetramer interface [polypeptide binding]; other site 907237002477 tRNA pseudouridine synthase, TruD family; Region: tRNA_TruD_broad; TIGR00094 907237002478 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 907237002479 Permutation of conserved domain; other site 907237002480 active site 907237002481 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 907237002482 heat shock protein HtpX; Provisional; Region: PRK02870 907237002483 GTP cyclohydrolase I; Region: folE; TIGR00063 907237002484 GTP cyclohydrolase I; Provisional; Region: PLN03044 907237002485 active site 907237002486 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 907237002487 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 907237002488 substrate binding pocket [chemical binding]; other site 907237002489 chain length determination region; other site 907237002490 substrate-Mg2+ binding site; other site 907237002491 catalytic residues [active] 907237002492 aspartate-rich region 1; other site 907237002493 active site lid residues [active] 907237002494 aspartate-rich region 2; other site 907237002495 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 907237002496 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 907237002497 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 907237002498 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 907237002499 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 907237002500 Coenzyme A binding pocket [chemical binding]; other site 907237002501 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 907237002502 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237002503 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 907237002504 putative substrate translocation pore; other site 907237002505 Uncharacterized conserved protein [Function unknown]; Region: COG1479 907237002506 Protein of unknown function DUF262; Region: DUF262; pfam03235 907237002507 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 907237002508 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 907237002509 dimer interface [polypeptide binding]; other site 907237002510 conserved gate region; other site 907237002511 putative PBP binding loops; other site 907237002512 ABC-ATPase subunit interface; other site 907237002513 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 907237002514 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 907237002515 substrate binding pocket [chemical binding]; other site 907237002516 membrane-bound complex binding site; other site 907237002517 hinge residues; other site 907237002518 alanine racemase; Region: alr; TIGR00492 907237002519 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 907237002520 active site 907237002521 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 907237002522 dimer interface [polypeptide binding]; other site 907237002523 substrate binding site [chemical binding]; other site 907237002524 catalytic residues [active] 907237002525 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 907237002526 amino acid carrier protein; Region: agcS; TIGR00835 907237002527 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 907237002528 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 907237002529 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 907237002530 homotrimer interaction site [polypeptide binding]; other site 907237002531 putative active site [active] 907237002532 TRL-like protein family; Region: TRL; pfam13146 907237002533 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 907237002534 Uncharacterized conserved protein [Function unknown]; Region: COG1576 907237002535 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 907237002536 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 907237002537 putative recombination protein RecO; Provisional; Region: PRK13908 907237002538 competence/damage-inducible protein CinA C-terminal domain; Region: cinA_cterm; TIGR00199 907237002539 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 907237002540 dimer interface [polypeptide binding]; other site 907237002541 FMN binding site [chemical binding]; other site 907237002542 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 907237002543 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 907237002544 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 907237002545 active site 907237002546 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 907237002547 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 907237002548 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 907237002549 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 907237002550 Putative zinc ribbon domain; Region: DUF164; pfam02591 907237002551 dinuclear metal center protein, YbgI/SA1388 family; Region: YbgI_SA1388; TIGR00486 907237002552 Uncharacterized conserved protein [Function unknown]; Region: COG0327 907237002553 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 907237002554 dimer interface [polypeptide binding]; other site 907237002555 motif 1; other site 907237002556 active site 907237002557 motif 2; other site 907237002558 motif 3; other site 907237002559 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 907237002560 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 907237002561 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 907237002562 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 907237002563 G1 box; other site 907237002564 GTP/Mg2+ binding site [chemical binding]; other site 907237002565 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 907237002566 G2 box; other site 907237002567 Switch I region; other site 907237002568 G3 box; other site 907237002569 Switch II region; other site 907237002570 G4 box; other site 907237002571 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 907237002572 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 907237002573 Outer membrane efflux protein; Region: OEP; pfam02321 907237002574 Outer membrane efflux protein; Region: OEP; pfam02321 907237002575 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 907237002576 phosphoglyceromutase; Provisional; Region: PRK05434 907237002577 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 907237002578 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, C subunit; Region: gatC; TIGR00135 907237002579 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 907237002580 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 907237002581 inhibitor-cofactor binding pocket; inhibition site 907237002582 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907237002583 catalytic residue [active] 907237002584 SurA N-terminal domain; Region: SurA_N_3; cl07813 907237002585 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 907237002586 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 907237002587 cell division protein FtsA; Region: ftsA; TIGR01174 907237002588 Cell division protein FtsA; Region: FtsA; smart00842 907237002589 Cell division protein FtsA; Region: FtsA; pfam14450 907237002590 cell division protein FtsZ; Validated; Region: PRK09330 907237002591 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 907237002592 nucleotide binding site [chemical binding]; other site 907237002593 SulA interaction site; other site 907237002594 Mechanosensitive ion channel; Region: MS_channel; pfam00924 907237002595 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 907237002596 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 907237002597 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 907237002598 Protein kinase domain; Region: Pkinase; pfam00069 907237002599 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 907237002600 active site 907237002601 ATP binding site [chemical binding]; other site 907237002602 substrate binding site [chemical binding]; other site 907237002603 activation loop (A-loop); other site 907237002604 Protein phosphatase 2C; Region: PP2C_2; pfam13672 907237002605 active site 907237002606 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 907237002607 metal ion-dependent adhesion site (MIDAS); other site 907237002608 potential protein location (hypothetical protein HPLT_05075 [Helicobacter pylori Lithuania75]) that overlaps RNA (5S ribosomal RNA) 907237002609 Uncharacterized conserved protein [Function unknown]; Region: COG1479 907237002610 Protein of unknown function DUF262; Region: DUF262; pfam03235 907237002611 Protein of unknown function DUF262; Region: DUF262; pfam03235 907237002612 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 907237002613 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 907237002614 DHH family; Region: DHH; pfam01368 907237002615 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 907237002616 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 907237002617 active site 907237002618 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 907237002619 catalytic residues [active] 907237002620 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 907237002621 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 907237002622 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 907237002623 putative ADP-binding pocket [chemical binding]; other site 907237002624 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 907237002625 active site 2 [active] 907237002626 active site 1 [active] 907237002627 Methyltransferase domain; Region: Methyltransf_23; pfam13489 907237002628 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 907237002629 S-adenosylmethionine binding site [chemical binding]; other site 907237002630 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 907237002631 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 907237002632 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 907237002633 active site 907237002634 HIGH motif; other site 907237002635 KMSKS motif; other site 907237002636 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 907237002637 anticodon binding site; other site 907237002638 tRNA binding surface [nucleotide binding]; other site 907237002639 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 907237002640 dimer interface [polypeptide binding]; other site 907237002641 putative tRNA-binding site [nucleotide binding]; other site 907237002642 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 907237002643 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 907237002644 S-adenosylmethionine binding site [chemical binding]; other site 907237002645 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 907237002646 Mechanosensitive ion channel; Region: MS_channel; pfam00924 907237002647 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 907237002648 GMP synthase; Reviewed; Region: guaA; PRK00074 907237002649 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 907237002650 AMP/PPi binding site [chemical binding]; other site 907237002651 candidate oxyanion hole; other site 907237002652 catalytic triad [active] 907237002653 potential glutamine specificity residues [chemical binding]; other site 907237002654 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 907237002655 ATP Binding subdomain [chemical binding]; other site 907237002656 Ligand Binding sites [chemical binding]; other site 907237002657 Dimerization subdomain; other site 907237002658 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 907237002659 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 907237002660 molybdopterin cofactor binding site [chemical binding]; other site 907237002661 substrate binding site [chemical binding]; other site 907237002662 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 907237002663 molybdopterin cofactor binding site; other site 907237002664 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 907237002665 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 907237002666 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 907237002667 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 907237002668 catalytic residue [active] 907237002669 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 907237002670 nucleotide binding site/active site [active] 907237002671 HIT family signature motif; other site 907237002672 catalytic residue [active] 907237002673 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 907237002674 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 907237002675 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 907237002676 dimer interface [polypeptide binding]; other site 907237002677 motif 1; other site 907237002678 active site 907237002679 motif 2; other site 907237002680 motif 3; other site 907237002681 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 907237002682 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 907237002683 putative tRNA-binding site [nucleotide binding]; other site 907237002684 tRNA synthetase B5 domain; Region: B5; pfam03484 907237002685 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 907237002686 dimer interface [polypeptide binding]; other site 907237002687 motif 1; other site 907237002688 motif 3; other site 907237002689 motif 2; other site 907237002690 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 907237002691 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 907237002692 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 907237002693 hinge; other site 907237002694 active site 907237002695 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 907237002696 LytB protein; Region: LYTB; pfam02401 907237002697 ribosomal protein S1; Region: rpsA; TIGR00717 907237002698 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 907237002699 RNA binding site [nucleotide binding]; other site 907237002700 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 907237002701 RNA binding site [nucleotide binding]; other site 907237002702 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 907237002703 RNA binding site [nucleotide binding]; other site 907237002704 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 907237002705 RNA binding site [nucleotide binding]; other site 907237002706 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 907237002707 RNA binding site [nucleotide binding]; other site 907237002708 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 907237002709 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 907237002710 ligand binding site [chemical binding]; other site 907237002711 NAD binding site [chemical binding]; other site 907237002712 dimerization interface [polypeptide binding]; other site 907237002713 catalytic site [active] 907237002714 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 907237002715 putative L-serine binding site [chemical binding]; other site 907237002716 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 907237002717 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 907237002718 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 907237002719 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 907237002720 catalytic residue [active] 907237002721 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 907237002722 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 907237002723 putative active site [active] 907237002724 putative metal binding site [ion binding]; other site 907237002725 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 907237002726 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 907237002727 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 907237002728 active site 907237002729 phosphorylation site [posttranslational modification] 907237002730 intermolecular recognition site; other site 907237002731 dimerization interface [polypeptide binding]; other site 907237002732 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 907237002733 putative binding surface; other site 907237002734 active site 907237002735 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 907237002736 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 907237002737 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 907237002738 ATP binding site [chemical binding]; other site 907237002739 Mg2+ binding site [ion binding]; other site 907237002740 G-X-G motif; other site 907237002741 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 907237002742 Response regulator receiver domain; Region: Response_reg; pfam00072 907237002743 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 907237002744 active site 907237002745 phosphorylation site [posttranslational modification] 907237002746 intermolecular recognition site; other site 907237002747 dimerization interface [polypeptide binding]; other site 907237002748 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 907237002749 putative CheA interaction surface; other site 907237002750 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 907237002751 dimer interface [polypeptide binding]; other site 907237002752 catalytic triad [active] 907237002753 peroxidatic and resolving cysteines [active] 907237002754 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 907237002755 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 907237002756 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 907237002757 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 907237002758 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 907237002759 S-adenosylmethionine binding site [chemical binding]; other site 907237002760 primosome assembly protein PriA; Validated; Region: PRK05580 907237002761 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 907237002762 ATP binding site [chemical binding]; other site 907237002763 putative Mg++ binding site [ion binding]; other site 907237002764 helicase superfamily c-terminal domain; Region: HELICc; smart00490 907237002765 Sporulation related domain; Region: SPOR; pfam05036 907237002766 Peptidase family M48; Region: Peptidase_M48; pfam01435 907237002767 HemK family putative methylases; Region: hemK_fam; TIGR00536 907237002768 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 907237002769 glutamate dehydrogenase; Provisional; Region: PRK09414 907237002770 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 907237002771 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 907237002772 NAD(P) binding site [chemical binding]; other site 907237002773 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 907237002774 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 907237002775 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 907237002776 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 907237002777 catalytic residues [active] 907237002778 ferrochelatase; Region: hemH; TIGR00109 907237002779 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 907237002780 C-terminal domain interface [polypeptide binding]; other site 907237002781 active site 907237002782 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 907237002783 active site 907237002784 N-terminal domain interface [polypeptide binding]; other site 907237002785 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 907237002786 RNA methyltransferase, RsmE family; Region: TIGR00046 907237002787 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237002788 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 907237002789 trimer interface [polypeptide binding]; other site 907237002790 active site 907237002791 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 907237002792 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 907237002793 carboxyltransferase (CT) interaction site; other site 907237002794 biotinylation site [posttranslational modification]; other site 907237002795 biotin carboxylase; Validated; Region: PRK08462 907237002796 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 907237002797 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 907237002798 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 907237002799 Methyltransferase domain; Region: Methyltransf_26; pfam13659 907237002800 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 907237002801 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 907237002802 inhibitor-cofactor binding pocket; inhibition site 907237002803 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907237002804 catalytic residue [active] 907237002805 potential protein location (hypothetical protein HPLT_05390 [Helicobacter pylori Lithuania75]) that overlaps RNA (tRNA-L) 907237002806 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 907237002807 dimer interface [polypeptide binding]; other site 907237002808 putative radical transfer pathway; other site 907237002809 diiron center [ion binding]; other site 907237002810 tyrosyl radical; other site 907237002811 protein-L-isoaspartate(D-aspartate) O-methyltransferase; Region: pimt; TIGR00080 907237002812 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 907237002813 S-adenosylmethionine binding site [chemical binding]; other site 907237002814 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 907237002815 Predicted permeases [General function prediction only]; Region: COG0795 907237002816 tRNA pseudouridine(38-40) synthase; Region: hisT_truA; TIGR00071 907237002817 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 907237002818 dimerization interface 3.5A [polypeptide binding]; other site 907237002819 active site 907237002820 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 907237002821 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 907237002822 NAD binding site [chemical binding]; other site 907237002823 homodimer interface [polypeptide binding]; other site 907237002824 active site 907237002825 substrate binding site [chemical binding]; other site 907237002826 potential protein location (hypothetical protein HPLT_05420 [Helicobacter pylori Lithuania75]) that overlaps RNA (tRNA-I) 907237002827 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 907237002828 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 907237002829 putative NAD(P) binding site [chemical binding]; other site 907237002830 homodimer interface [polypeptide binding]; other site 907237002831 homotetramer interface [polypeptide binding]; other site 907237002832 active site 907237002833 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 907237002834 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 907237002835 binding surface 907237002836 TPR motif; other site 907237002837 Sel1-like repeats; Region: SEL1; smart00671 907237002838 Sel1-like repeats; Region: SEL1; smart00671 907237002839 Sel1-like repeats; Region: SEL1; smart00671 907237002840 Entner-Doudoroff aldolase; Region: eda; TIGR01182 907237002841 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 907237002842 active site 907237002843 intersubunit interface [polypeptide binding]; other site 907237002844 catalytic residue [active] 907237002845 phosphogluconate dehydratase; Validated; Region: PRK09054 907237002846 6-phosphogluconate dehydratase; Region: edd; TIGR01196 907237002847 Glucose-6-phosphate 1-dehydrogenase [Carbohydrate transport and metabolism]; Region: Zwf; COG0364 907237002848 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 907237002849 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 907237002850 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 907237002851 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 907237002852 putative active site [active] 907237002853 glucokinase, proteobacterial type; Region: glk; TIGR00749 907237002854 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 907237002855 nucleotide binding site [chemical binding]; other site 907237002856 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 907237002857 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 907237002858 putative NAD(P) binding site [chemical binding]; other site 907237002859 putative substrate binding site [chemical binding]; other site 907237002860 catalytic Zn binding site [ion binding]; other site 907237002861 structural Zn binding site [ion binding]; other site 907237002862 dimer interface [polypeptide binding]; other site 907237002863 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 907237002864 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 907237002865 active site 907237002866 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237002867 pyruvate flavodoxin oxidoreductase subunit gamma; Validated; Region: PRK05844 907237002868 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 907237002869 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 907237002870 4Fe-4S binding domain; Region: Fer4; pfam00037 907237002871 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 907237002872 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 907237002873 dimer interface [polypeptide binding]; other site 907237002874 PYR/PP interface [polypeptide binding]; other site 907237002875 TPP binding site [chemical binding]; other site 907237002876 substrate binding site [chemical binding]; other site 907237002877 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 907237002878 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 907237002879 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 907237002880 TPP-binding site [chemical binding]; other site 907237002881 putative dimer interface [polypeptide binding]; other site 907237002882 adenylosuccinate lyase; Provisional; Region: PRK08470 907237002883 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 907237002884 tetramer interface [polypeptide binding]; other site 907237002885 active site 907237002886 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 907237002887 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237002888 excinuclease ABC subunit B; Provisional; Region: PRK05298 907237002889 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 907237002890 ATP binding site [chemical binding]; other site 907237002891 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 907237002892 putative Mg++ binding site [ion binding]; other site 907237002893 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 907237002894 nucleotide binding region [chemical binding]; other site 907237002895 ATP-binding site [chemical binding]; other site 907237002896 Ultra-violet resistance protein B; Region: UvrB; pfam12344 907237002897 UvrB/uvrC motif; Region: UVR; pfam02151 907237002898 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 907237002899 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 907237002900 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 907237002901 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 907237002902 binding surface 907237002903 TPR motif; other site 907237002904 Sel1-like repeats; Region: SEL1; smart00671 907237002905 Sel1-like repeats; Region: SEL1; smart00671 907237002906 Sel1-like repeats; Region: SEL1; smart00671 907237002907 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 907237002908 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 907237002909 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 907237002910 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 907237002911 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 907237002912 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 907237002913 cofactor binding site; other site 907237002914 DNA binding site [nucleotide binding] 907237002915 substrate interaction site [chemical binding]; other site 907237002916 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 907237002917 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 907237002918 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 907237002919 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 907237002920 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 907237002921 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 907237002922 ligand binding site [chemical binding]; other site 907237002923 translocation protein TolB; Provisional; Region: tolB; PRK04043 907237002924 TolB amino-terminal domain; Region: TolB_N; pfam04052 907237002925 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 907237002926 TonB C terminal; Region: TonB_2; pfam13103 907237002927 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 907237002928 TolR protein; Region: tolR; TIGR02801 907237002929 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 907237002930 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 907237002931 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 907237002932 gamma subunit interface [polypeptide binding]; other site 907237002933 epsilon subunit interface [polypeptide binding]; other site 907237002934 LBP interface [polypeptide binding]; other site 907237002935 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 907237002936 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 907237002937 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 907237002938 alpha subunit interaction interface [polypeptide binding]; other site 907237002939 Walker A motif; other site 907237002940 ATP binding site [chemical binding]; other site 907237002941 Walker B motif; other site 907237002942 inhibitor binding site; inhibition site 907237002943 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 907237002944 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 907237002945 core domain interface [polypeptide binding]; other site 907237002946 delta subunit interface [polypeptide binding]; other site 907237002947 epsilon subunit interface [polypeptide binding]; other site 907237002948 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 907237002949 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 907237002950 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 907237002951 beta subunit interaction interface [polypeptide binding]; other site 907237002952 Walker A motif; other site 907237002953 ATP binding site [chemical binding]; other site 907237002954 Walker B motif; other site 907237002955 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 907237002956 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13431 907237002957 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 907237002958 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 907237002959 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 907237002960 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 907237002961 ParB-like nuclease domain; Region: ParB; smart00470 907237002962 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 907237002963 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 907237002964 P-loop; other site 907237002965 Magnesium ion binding site [ion binding]; other site 907237002966 biotin--protein ligase; Provisional; Region: PRK08477 907237002967 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 907237002968 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 907237002969 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 907237002970 putative active site [active] 907237002971 substrate binding site [chemical binding]; other site 907237002972 putative cosubstrate binding site; other site 907237002973 catalytic site [active] 907237002974 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 907237002975 substrate binding site [chemical binding]; other site 907237002976 PHP-associated; Region: PHP_C; pfam13263 907237002977 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907237002978 Walker A/P-loop; other site 907237002979 ATP binding site [chemical binding]; other site 907237002980 AAA domain; Region: AAA_21; pfam13304 907237002981 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907237002982 ABC transporter signature motif; other site 907237002983 Walker B; other site 907237002984 D-loop; other site 907237002985 H-loop/switch region; other site 907237002986 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 907237002987 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 907237002988 Uncharacterized conserved protein [Function unknown]; Region: COG1432 907237002989 LabA_like proteins; Region: LabA_like; cd06167 907237002990 putative metal binding site [ion binding]; other site 907237002991 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 907237002992 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 907237002993 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 907237002994 RimM N-terminal domain; Region: RimM; pfam01782 907237002995 PRC-barrel domain; Region: PRC; pfam05239 907237002996 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 907237002997 KH domain; Region: KH_4; pfam13083 907237002998 G-X-X-G motif; other site 907237002999 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 907237003000 signal recognition particle protein; Provisional; Region: PRK10867 907237003001 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 907237003002 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 907237003003 P loop; other site 907237003004 GTP binding site [chemical binding]; other site 907237003005 Signal peptide binding domain; Region: SRP_SPB; pfam02978 907237003006 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 907237003007 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 907237003008 active site 907237003009 HIGH motif; other site 907237003010 nucleotide binding site [chemical binding]; other site 907237003011 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 907237003012 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 907237003013 active site 907237003014 KMSKS motif; other site 907237003015 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 907237003016 anticodon binding site; other site 907237003017 flagellar assembly protein FliW; Provisional; Region: PRK13283 907237003018 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 907237003019 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 907237003020 homodimer interface [polypeptide binding]; other site 907237003021 active site 907237003022 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237003023 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237003024 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 907237003025 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 907237003026 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 907237003027 Fic/DOC family; Region: Fic; cl00960 907237003028 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 907237003029 active site 907237003030 iron coordination sites [ion binding]; other site 907237003031 substrate binding pocket [chemical binding]; other site 907237003032 metal-binding heat shock protein; Provisional; Region: PRK00016 907237003033 flavodoxin FldA; Validated; Region: PRK09267 907237003034 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 907237003035 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 907237003036 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 907237003037 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 907237003038 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 907237003039 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 907237003040 Major Facilitator Superfamily; Region: MFS_1; pfam07690 907237003041 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 907237003042 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 907237003043 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 907237003044 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 907237003045 active site 907237003046 dimer interface [polypeptide binding]; other site 907237003047 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 907237003048 dimer interface [polypeptide binding]; other site 907237003049 active site 907237003050 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 907237003051 carbon starvation protein A; Provisional; Region: PRK15015 907237003052 Carbon starvation protein CstA; Region: CstA; pfam02554 907237003053 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 907237003054 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 907237003055 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 907237003056 dimer interface [polypeptide binding]; other site 907237003057 conserved gate region; other site 907237003058 putative PBP binding loops; other site 907237003059 ABC-ATPase subunit interface; other site 907237003060 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 907237003061 dimer interface [polypeptide binding]; other site 907237003062 conserved gate region; other site 907237003063 putative PBP binding loops; other site 907237003064 ABC-ATPase subunit interface; other site 907237003065 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 907237003066 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 907237003067 Walker A/P-loop; other site 907237003068 ATP binding site [chemical binding]; other site 907237003069 Q-loop/lid; other site 907237003070 ABC transporter signature motif; other site 907237003071 Walker B; other site 907237003072 D-loop; other site 907237003073 H-loop/switch region; other site 907237003074 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 907237003075 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 907237003076 substrate binding pocket [chemical binding]; other site 907237003077 membrane-bound complex binding site; other site 907237003078 hinge residues; other site 907237003079 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 907237003080 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 907237003081 putative substrate translocation pore; other site 907237003082 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 907237003083 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237003084 purine-nucleoside phosphorylase, family 1 (deoD); Region: deoD; TIGR00107 907237003085 phosphopentomutase; Provisional; Region: PRK05362 907237003086 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 907237003087 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 907237003088 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 907237003089 Nucleoside recognition; Region: Gate; pfam07670 907237003090 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 907237003091 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 907237003092 Major Facilitator Superfamily; Region: MFS_1; pfam07690 907237003093 putative substrate translocation pore; other site 907237003094 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 907237003095 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 907237003096 Ligand Binding Site [chemical binding]; other site 907237003097 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 907237003098 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 907237003099 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 907237003100 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 907237003101 putative arabinose transporter; Provisional; Region: PRK03545 907237003102 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 907237003103 putative substrate translocation pore; other site 907237003104 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 907237003105 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 907237003106 active site 907237003107 zinc binding site [ion binding]; other site 907237003108 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 907237003109 aspartate-semialdehyde dehydrogenase (peptidoglycan organisms); Region: asd_B; TIGR01296 907237003110 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 907237003111 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 907237003112 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 907237003113 dimer interface [polypeptide binding]; other site 907237003114 motif 1; other site 907237003115 active site 907237003116 motif 2; other site 907237003117 motif 3; other site 907237003118 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 907237003119 anticodon binding site; other site 907237003120 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 907237003121 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 907237003122 putative active site [active] 907237003123 elongation factor G; Reviewed; Region: PRK00007 907237003124 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 907237003125 G1 box; other site 907237003126 putative GEF interaction site [polypeptide binding]; other site 907237003127 GTP/Mg2+ binding site [chemical binding]; other site 907237003128 Switch I region; other site 907237003129 G2 box; other site 907237003130 G3 box; other site 907237003131 Switch II region; other site 907237003132 G4 box; other site 907237003133 G5 box; other site 907237003134 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 907237003135 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 907237003136 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 907237003137 30S ribosomal protein S7; Validated; Region: PRK05302 907237003138 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 907237003139 S17 interaction site [polypeptide binding]; other site 907237003140 S8 interaction site; other site 907237003141 16S rRNA interaction site [nucleotide binding]; other site 907237003142 streptomycin interaction site [chemical binding]; other site 907237003143 23S rRNA interaction site [nucleotide binding]; other site 907237003144 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 907237003145 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 907237003146 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 907237003147 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 907237003148 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 907237003149 RPB11 interaction site [polypeptide binding]; other site 907237003150 RPB12 interaction site [polypeptide binding]; other site 907237003151 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 907237003152 RPB3 interaction site [polypeptide binding]; other site 907237003153 RPB1 interaction site [polypeptide binding]; other site 907237003154 RPB11 interaction site [polypeptide binding]; other site 907237003155 RPB10 interaction site [polypeptide binding]; other site 907237003156 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 907237003157 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 907237003158 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 907237003159 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 907237003160 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 907237003161 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 907237003162 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 907237003163 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 907237003164 DNA binding site [nucleotide binding] 907237003165 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 907237003166 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 907237003167 core dimer interface [polypeptide binding]; other site 907237003168 peripheral dimer interface [polypeptide binding]; other site 907237003169 L10 interface [polypeptide binding]; other site 907237003170 L11 interface [polypeptide binding]; other site 907237003171 putative EF-Tu interaction site [polypeptide binding]; other site 907237003172 putative EF-G interaction site [polypeptide binding]; other site 907237003173 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 907237003174 23S rRNA interface [nucleotide binding]; other site 907237003175 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 907237003176 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 907237003177 mRNA/rRNA interface [nucleotide binding]; other site 907237003178 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 907237003179 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 907237003180 23S rRNA interface [nucleotide binding]; other site 907237003181 L7/L12 interface [polypeptide binding]; other site 907237003182 putative thiostrepton binding site; other site 907237003183 L25 interface [polypeptide binding]; other site 907237003184 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 907237003185 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 907237003186 putative homodimer interface [polypeptide binding]; other site 907237003187 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 907237003188 heterodimer interface [polypeptide binding]; other site 907237003189 homodimer interface [polypeptide binding]; other site 907237003190 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 907237003191 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 907237003192 elongation factor Tu; Reviewed; Region: PRK00049 907237003193 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 907237003194 G1 box; other site 907237003195 GEF interaction site [polypeptide binding]; other site 907237003196 GTP/Mg2+ binding site [chemical binding]; other site 907237003197 Switch I region; other site 907237003198 G2 box; other site 907237003199 G3 box; other site 907237003200 Switch II region; other site 907237003201 G4 box; other site 907237003202 G5 box; other site 907237003203 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 907237003204 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 907237003205 Antibiotic Binding Site [chemical binding]; other site 907237003206 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 907237003207 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 907237003208 Walker A/P-loop; other site 907237003209 ATP binding site [chemical binding]; other site 907237003210 Q-loop/lid; other site 907237003211 ABC transporter signature motif; other site 907237003212 Walker B; other site 907237003213 D-loop; other site 907237003214 H-loop/switch region; other site 907237003215 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 907237003216 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 907237003217 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; pfam02086 907237003218 Helicobacter pylori IceA2 protein; Region: IceA2; pfam05862 907237003219 serine O-acetyltransferase; Region: cysE; TIGR01172 907237003220 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 907237003221 trimer interface [polypeptide binding]; other site 907237003222 active site 907237003223 substrate binding site [chemical binding]; other site 907237003224 CoA binding site [chemical binding]; other site 907237003225 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 907237003226 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 907237003227 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 907237003228 oligomer interface [polypeptide binding]; other site 907237003229 RNA binding site [nucleotide binding]; other site 907237003230 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 907237003231 oligomer interface [polypeptide binding]; other site 907237003232 RNA binding site [nucleotide binding]; other site 907237003233 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 907237003234 putative nucleic acid binding region [nucleotide binding]; other site 907237003235 G-X-X-G motif; other site 907237003236 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 907237003237 RNA binding site [nucleotide binding]; other site 907237003238 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG1926 907237003239 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 907237003240 Organic solvent tolerance protein; Region: OstA_C; pfam04453 907237003241 Predicted membrane protein/domain [Function unknown]; Region: COG1714 907237003242 phosphoribosylamine--glycine ligase; Region: purD; TIGR00877 907237003243 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 907237003244 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 907237003245 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 907237003246 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 907237003247 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 907237003248 Walker A/P-loop; other site 907237003249 ATP binding site [chemical binding]; other site 907237003250 Q-loop/lid; other site 907237003251 ABC transporter signature motif; other site 907237003252 Walker B; other site 907237003253 D-loop; other site 907237003254 H-loop/switch region; other site 907237003255 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 907237003256 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 907237003257 catalytic residue [active] 907237003258 putative FPP diphosphate binding site; other site 907237003259 putative FPP binding hydrophobic cleft; other site 907237003260 dimer interface [polypeptide binding]; other site 907237003261 putative IPP diphosphate binding site; other site 907237003262 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 907237003263 FAD binding domain; Region: FAD_binding_4; pfam01565 907237003264 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 907237003265 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 907237003266 active site residue [active] 907237003267 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 907237003268 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 907237003269 active site 907237003270 camphor resistance protein CrcB; Provisional; Region: PRK14204 907237003271 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 907237003272 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 907237003273 FeS/SAM binding site; other site 907237003274 HemN C-terminal domain; Region: HemN_C; pfam06969 907237003275 Cytochrome c553 [Energy production and conversion]; Region: COG2863 907237003276 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 907237003277 putative active site [active] 907237003278 Ap4A binding site [chemical binding]; other site 907237003279 nudix motif; other site 907237003280 putative metal binding site [ion binding]; other site 907237003281 aspartate kinase; Reviewed; Region: PRK06635 907237003282 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 907237003283 putative nucleotide binding site [chemical binding]; other site 907237003284 putative catalytic residues [active] 907237003285 putative Mg ion binding site [ion binding]; other site 907237003286 putative aspartate binding site [chemical binding]; other site 907237003287 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 907237003288 putative allosteric regulatory site; other site 907237003289 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 907237003290 putative allosteric regulatory residue; other site 907237003291 DNA replication regulator; Region: HobA; pfam12163 907237003292 DNA polymerase III subunit delta'; Validated; Region: PRK08485 907237003293 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 907237003294 dihydropteroate synthase; Region: DHPS; TIGR01496 907237003295 substrate binding pocket [chemical binding]; other site 907237003296 dimer interface [polypeptide binding]; other site 907237003297 inhibitor binding site; inhibition site 907237003298 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 907237003299 EamA-like transporter family; Region: EamA; pfam00892 907237003300 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 907237003301 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2952 907237003302 Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarA; COG0505 907237003303 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 907237003304 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 907237003305 catalytic site [active] 907237003306 subunit interface [polypeptide binding]; other site 907237003307 formamidase; Provisional; Region: amiF; PRK13287 907237003308 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 907237003309 multimer interface [polypeptide binding]; other site 907237003310 active site 907237003311 catalytic triad [active] 907237003312 dimer interface [polypeptide binding]; other site 907237003313 Maf-like protein; Reviewed; Region: PRK04056 907237003314 putative active site [active] 907237003315 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 907237003316 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 907237003317 motif 1; other site 907237003318 active site 907237003319 motif 2; other site 907237003320 motif 3; other site 907237003321 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 907237003322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 907237003323 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237003324 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 907237003325 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 907237003326 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 907237003327 dimer interface [polypeptide binding]; other site 907237003328 ssDNA binding site [nucleotide binding]; other site 907237003329 tetramer (dimer of dimers) interface [polypeptide binding]; other site 907237003330 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 907237003331 DNA polymerase III subunit delta; Validated; Region: PRK08487 907237003332 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 907237003333 Exoribonuclease R [Transcription]; Region: VacB; COG0557 907237003334 RNB domain; Region: RNB; pfam00773 907237003335 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 907237003336 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 907237003337 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 907237003338 shikimate binding site; other site 907237003339 NAD(P) binding site [chemical binding]; other site 907237003340 Bacterial SH3 domain; Region: SH3_3; pfam08239 907237003341 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 907237003342 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 907237003343 dimer interface [polypeptide binding]; other site 907237003344 conserved gate region; other site 907237003345 putative PBP binding loops; other site 907237003346 ABC-ATPase subunit interface; other site 907237003347 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 907237003348 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 907237003349 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 907237003350 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 907237003351 active site 907237003352 HIGH motif; other site 907237003353 dimer interface [polypeptide binding]; other site 907237003354 KMSKS motif; other site 907237003355 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 907237003356 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 907237003357 S-adenosylmethionine binding site [chemical binding]; other site 907237003358 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 907237003359 ribosome recycling factor; Reviewed; Region: frr; PRK00083 907237003360 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 907237003361 hinge region; other site 907237003362 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 907237003363 active site 907237003364 RDD family; Region: RDD; pfam06271 907237003365 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 907237003366 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 907237003367 NAD+ binding site [chemical binding]; other site 907237003368 substrate binding site [chemical binding]; other site 907237003369 Zn binding site [ion binding]; other site 907237003370 NADH dehydrogenase subunit A; Validated; Region: PRK08489 907237003371 NADH dehydrogenase subunit B; Validated; Region: PRK06411 907237003372 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 907237003373 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 907237003374 NADH dehydrogenase subunit D; Validated; Region: PRK06075 907237003375 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 907237003376 NADH dehydrogenase subunit G; Validated; Region: PRK08493 907237003377 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 907237003378 catalytic loop [active] 907237003379 iron binding site [ion binding]; other site 907237003380 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 907237003381 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 907237003382 molybdopterin cofactor binding site; other site 907237003383 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 907237003384 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 907237003385 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 907237003386 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 907237003387 4Fe-4S binding domain; Region: Fer4; cl02805 907237003388 4Fe-4S binding domain; Region: Fer4; pfam00037 907237003389 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 907237003390 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 907237003391 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 907237003392 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 907237003393 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 907237003394 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 907237003395 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 907237003396 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 907237003397 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 907237003398 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 907237003399 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 907237003400 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 907237003401 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 907237003402 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 907237003403 active site 907237003404 substrate binding site [chemical binding]; other site 907237003405 metal binding site [ion binding]; metal-binding site 907237003406 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 907237003407 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 907237003408 substrate binding site [chemical binding]; other site 907237003409 active site 907237003410 catalytic residues [active] 907237003411 heterodimer interface [polypeptide binding]; other site 907237003412 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 907237003413 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 907237003414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 907237003415 catalytic residue [active] 907237003416 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 907237003417 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 907237003418 active site 907237003419 ribulose/triose binding site [chemical binding]; other site 907237003420 phosphate binding site [ion binding]; other site 907237003421 substrate (anthranilate) binding pocket [chemical binding]; other site 907237003422 product (indole) binding pocket [chemical binding]; other site 907237003423 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 907237003424 active site 907237003425 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 907237003426 anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245 907237003427 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 907237003428 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 907237003429 Glutamine amidotransferase class-I; Region: GATase; pfam00117 907237003430 glutamine binding [chemical binding]; other site 907237003431 catalytic triad [active] 907237003432 anthranilate synthase component I; Provisional; Region: PRK13564 907237003433 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 907237003434 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 907237003435 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 907237003436 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 907237003437 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 907237003438 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 907237003439 putative active site [active] 907237003440 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 907237003441 active site 907237003442 motif I; other site 907237003443 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 907237003444 motif II; other site 907237003445 Uncharacterized conserved protein [Function unknown]; Region: COG2353 907237003446 thiaminase II; Region: salvage_TenA; TIGR04306 907237003447 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 907237003448 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 907237003449 Thiamine pyrophosphokinase; Region: TPK; cd07995 907237003450 active site 907237003451 dimerization interface [polypeptide binding]; other site 907237003452 thiamine binding site [chemical binding]; other site 907237003453 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 907237003454 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 907237003455 alphaNTD homodimer interface [polypeptide binding]; other site 907237003456 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 907237003457 alphaNTD - beta interaction site [polypeptide binding]; other site 907237003458 alphaNTD - beta' interaction site [polypeptide binding]; other site 907237003459 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 907237003460 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 907237003461 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 907237003462 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 907237003463 RNA binding surface [nucleotide binding]; other site 907237003464 30S ribosomal protein S11; Validated; Region: PRK05309 907237003465 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 907237003466 30S ribosomal protein S13; Region: bact_S13; TIGR03631 907237003467 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 907237003468 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 907237003469 rRNA binding site [nucleotide binding]; other site 907237003470 predicted 30S ribosome binding site; other site 907237003471 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 907237003472 active site 907237003473 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 907237003474 SecY translocase; Region: SecY; pfam00344 907237003475 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 907237003476 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 907237003477 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 907237003478 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 907237003479 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 907237003480 23S rRNA interface [nucleotide binding]; other site 907237003481 5S rRNA interface [nucleotide binding]; other site 907237003482 L27 interface [polypeptide binding]; other site 907237003483 L5 interface [polypeptide binding]; other site 907237003484 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 907237003485 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 907237003486 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 907237003487 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 907237003488 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 907237003489 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 907237003490 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 907237003491 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 907237003492 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 907237003493 RNA binding site [nucleotide binding]; other site 907237003494 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 907237003495 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 907237003496 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 907237003497 putative translocon interaction site; other site 907237003498 23S rRNA interface [nucleotide binding]; other site 907237003499 signal recognition particle (SRP54) interaction site; other site 907237003500 L23 interface [polypeptide binding]; other site 907237003501 trigger factor interaction site; other site 907237003502 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 907237003503 23S rRNA interface [nucleotide binding]; other site 907237003504 5S rRNA interface [nucleotide binding]; other site 907237003505 putative antibiotic binding site [chemical binding]; other site 907237003506 L25 interface [polypeptide binding]; other site 907237003507 L27 interface [polypeptide binding]; other site 907237003508 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 907237003509 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 907237003510 G-X-X-G motif; other site 907237003511 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 907237003512 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 907237003513 putative translocon binding site; other site 907237003514 protein-rRNA interface [nucleotide binding]; other site 907237003515 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 907237003516 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 907237003517 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 907237003518 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 907237003519 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 907237003520 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 907237003521 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 907237003522 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 907237003523 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 907237003524 AAA domain; Region: AAA_14; pfam13173 907237003525 Helix-turn-helix domain; Region: HTH_36; pfam13730 907237003526 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 907237003527 RNA/DNA hybrid binding site [nucleotide binding]; other site 907237003528 active site 907237003529 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 907237003530 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; cl17189 907237003531 Walker A motif; other site 907237003532 ATP binding site [chemical binding]; other site 907237003533 Walker B motif; other site 907237003534 fumarate hydratase; Reviewed; Region: fumC; PRK00485 907237003535 Class II fumarases; Region: Fumarase_classII; cd01362 907237003536 active site 907237003537 tetramer interface [polypeptide binding]; other site 907237003538 YtkA-like; Region: YtkA; pfam13115 907237003539 Outer membrane efflux protein; Region: OEP; pfam02321 907237003540 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 907237003541 HlyD family secretion protein; Region: HlyD_3; pfam13437 907237003542 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 907237003543 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 907237003544 AzlC protein; Region: AzlC; cl00570 907237003545 chaperone protein DnaJ; Provisional; Region: PRK14288 907237003546 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 907237003547 HSP70 interaction site [polypeptide binding]; other site 907237003548 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 907237003549 substrate binding site [polypeptide binding]; other site 907237003550 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 907237003551 Zn binding sites [ion binding]; other site 907237003552 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 907237003553 dimer interface [polypeptide binding]; other site 907237003554 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 907237003555 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 907237003556 Ligand Binding Site [chemical binding]; other site 907237003557 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 907237003558 HSP70 interaction site [polypeptide binding]; other site 907237003559 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 907237003560 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 907237003561 active site 907237003562 (T/H)XGH motif; other site 907237003563 nickel responsive regulator; Provisional; Region: PRK00630 907237003564 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 907237003565 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 907237003566 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 907237003567 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 907237003568 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 907237003569 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 907237003570 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 907237003571 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237003572 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 907237003573 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 907237003574 Mg2+ transporter Helicobacter pylori CorA-like subgroup; Region: HpCorA-like; cd12836 907237003575 Cl binding site [ion binding]; other site 907237003576 oligomer interface [polypeptide binding]; other site 907237003577 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 907237003578 Phosphoglycerate kinase; Region: PGK; pfam00162 907237003579 substrate binding site [chemical binding]; other site 907237003580 hinge regions; other site 907237003581 ADP binding site [chemical binding]; other site 907237003582 catalytic site [active] 907237003583 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 907237003584 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 907237003585 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 907237003586 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 907237003587 ligand binding site [chemical binding]; other site 907237003588 active site 907237003589 UGI interface [polypeptide binding]; other site 907237003590 catalytic site [active] 907237003591 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 907237003592 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 907237003593 putative acyl-acceptor binding pocket; other site 907237003594 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 907237003595 C-terminal peptidase (prc); Region: prc; TIGR00225 907237003596 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 907237003597 protein binding site [polypeptide binding]; other site 907237003598 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 907237003599 Catalytic dyad [active] 907237003600 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 907237003601 DNA methylase; Region: N6_N4_Mtase; pfam01555 907237003602 Predicted helicase [General function prediction only]; Region: COG4889 907237003603 Predicted helicase [General function prediction only]; Region: COG4889 907237003604 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 907237003605 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 907237003606 dimerization interface [polypeptide binding]; other site 907237003607 active site 907237003608 Quinolinate synthetase A protein; Region: NadA; cl00420 907237003609 Quinolinate synthetase A protein; Region: NadA; cl00420 907237003610 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 907237003611 prenyltransferase; Reviewed; Region: ubiA; PRK12874 907237003612 UbiA prenyltransferase family; Region: UbiA; pfam01040 907237003613 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 907237003614 Competence protein; Region: Competence; pfam03772 907237003615 replicative DNA helicase; Provisional; Region: PRK08506 907237003616 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 907237003617 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 907237003618 Walker A motif; other site 907237003619 ATP binding site [chemical binding]; other site 907237003620 Walker B motif; other site 907237003621 DNA binding loops [nucleotide binding] 907237003622 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 907237003623 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 907237003624 putative substrate binding site [chemical binding]; other site 907237003625 putative ATP binding site [chemical binding]; other site 907237003626 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 907237003627 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 907237003628 dimer interface [polypeptide binding]; other site 907237003629 phosphorylation site [posttranslational modification] 907237003630 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 907237003631 ATP binding site [chemical binding]; other site 907237003632 Mg2+ binding site [ion binding]; other site 907237003633 G-X-G motif; other site 907237003634 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 907237003635 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 907237003636 active site 907237003637 phosphorylation site [posttranslational modification] 907237003638 intermolecular recognition site; other site 907237003639 dimerization interface [polypeptide binding]; other site 907237003640 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 907237003641 DNA binding site [nucleotide binding] 907237003642 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 907237003643 DNA methylase; Region: N6_N4_Mtase; pfam01555 907237003644 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 907237003645 DNA methylase; Region: N6_N4_Mtase; pfam01555 907237003646 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 907237003647 rod shape-determining protein MreC; Region: MreC; pfam04085 907237003648 rod shape-determining protein MreB; Provisional; Region: PRK13927 907237003649 MreB and similar proteins; Region: MreB_like; cd10225 907237003650 nucleotide binding site [chemical binding]; other site 907237003651 Mg binding site [ion binding]; other site 907237003652 putative protofilament interaction site [polypeptide binding]; other site 907237003653 RodZ interaction site [polypeptide binding]; other site 907237003654 endopeptidase Clp ATP-binding regulatory subunit (clpX); Region: clpX; TIGR00382 907237003655 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 907237003656 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 907237003657 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 907237003658 Walker A motif; other site 907237003659 ATP binding site [chemical binding]; other site 907237003660 Walker B motif; other site 907237003661 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 907237003662 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 907237003663 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 907237003664 active site 907237003665 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 907237003666 flagellar assembly protein FliW; Provisional; Region: PRK13282 907237003667 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 907237003668 ATP-dependent protease La; Region: lon; TIGR00763 907237003669 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 907237003670 Walker A motif; other site 907237003671 ATP binding site [chemical binding]; other site 907237003672 Walker B motif; other site 907237003673 arginine finger; other site 907237003674 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 907237003675 prephenate dehydrogenase; Validated; Region: PRK08507 907237003676 Prephenate dehydrogenase; Region: PDH; pfam02153 907237003677 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 907237003678 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 907237003679 active site 907237003680 substrate binding site [chemical binding]; other site 907237003681 Mg2+ binding site [ion binding]; other site 907237003682 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 907237003683 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 907237003684 DNA methylase; Region: N6_N4_Mtase; pfam01555 907237003685 DNA methylase; Region: N6_N4_Mtase; pfam01555 907237003686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 907237003687 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 907237003688 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 907237003689 biotin synthase; Provisional; Region: PRK08508 907237003690 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 907237003691 FeS/SAM binding site; other site 907237003692 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 907237003693 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 907237003694 potential protein location (hypothetical protein HPLT_06955 [Helicobacter pylori Lithuania75]) that overlaps RNA (5S ribosomal RNA) 907237003695 Uncharacterized conserved protein [Function unknown]; Region: COG1479 907237003696 Protein of unknown function DUF262; Region: DUF262; pfam03235 907237003697 Protein of unknown function DUF262; Region: DUF262; pfam03235 907237003698 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 907237003699 7-cyano-7-deazaguanine reductase; Region: QueF-II; TIGR03139 907237003700 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 907237003701 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 907237003702 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 907237003703 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 907237003704 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 907237003705 active site 907237003706 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 907237003707 Sulfatase; Region: Sulfatase; cl17466 907237003708 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 907237003709 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 907237003710 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 907237003711 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 907237003712 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 907237003713 Walker A motif/ATP binding site; other site 907237003714 Walker B motif; other site 907237003715 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 907237003716 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 907237003717 ATP binding site [chemical binding]; other site 907237003718 Walker A motif; other site 907237003719 hexamer interface [polypeptide binding]; other site 907237003720 Walker B motif; other site 907237003721 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 907237003722 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 907237003723 active site 907237003724 HIGH motif; other site 907237003725 nucleotide binding site [chemical binding]; other site 907237003726 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 907237003727 active site 907237003728 KMSKS motif; other site 907237003729 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 907237003730 tRNA binding surface [nucleotide binding]; other site 907237003731 anticodon binding site; other site 907237003732 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 907237003733 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 907237003734 RNA binding surface [nucleotide binding]; other site 907237003735 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 907237003736 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 907237003737 FeS/SAM binding site; other site 907237003738 KpsF/GutQ family protein; Region: kpsF; TIGR00393 907237003739 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 907237003740 putative active site [active] 907237003741 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 907237003742 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 907237003743 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 907237003744 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 907237003745 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 907237003746 dimethyladenosine transferase; Region: ksgA; TIGR00755 907237003747 S-adenosylmethionine binding site [chemical binding]; other site 907237003748 formyltetrahydrofolate deformylase; Region: PurU; TIGR00655 907237003749 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 907237003750 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 907237003751 active site 907237003752 substrate binding site [chemical binding]; other site 907237003753 cosubstrate binding site; other site 907237003754 catalytic site [active] 907237003755 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 907237003756 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 907237003757 tandem repeat interface [polypeptide binding]; other site 907237003758 oligomer interface [polypeptide binding]; other site 907237003759 active site residues [active] 907237003760 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 907237003761 active site 907237003762 carbon storage regulator; Provisional; Region: PRK00568 907237003763 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 907237003764 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 907237003765 SmpB-tmRNA interface; other site 907237003766 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 907237003767 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 907237003768 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 907237003769 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 907237003770 ribonuclease P protein component, eubacterial; Region: rnpA; TIGR00188 907237003771 hypothetical protein; Provisional; Region: PRK14374 907237003772 membrane protein insertase; Provisional; Region: PRK01318 907237003773 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 907237003774 potential frameshift: common BLAST hit: gi|298735583|ref|YP_003728106.1| spoIIIJ-associated protein 907237003775 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 907237003776 tRNA modification GTPase TrmE; Region: mnmE_trmE_thdF; TIGR00450 907237003777 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 907237003778 GTP/Mg2+ binding site [chemical binding]; other site 907237003779 G4 box; other site 907237003780 G5 box; other site 907237003781 trmE is a tRNA modification GTPase; Region: trmE; cd04164 907237003782 G1 box; other site 907237003783 G1 box; other site 907237003784 GTP/Mg2+ binding site [chemical binding]; other site 907237003785 Switch I region; other site 907237003786 Switch I region; other site 907237003787 G2 box; other site 907237003788 G2 box; other site 907237003789 Switch II region; other site 907237003790 G3 box; other site 907237003791 G3 box; other site 907237003792 Switch II region; other site 907237003793 G4 box; other site 907237003794 G5 box; other site 907237003795 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 907237003796 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237003797 LPP20 lipoprotein; Region: LPP20; pfam02169 907237003798 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 907237003799 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 907237003800 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 907237003801 catalytic residues [active] 907237003802 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 907237003803 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 907237003804 RNA binding surface [nucleotide binding]; other site 907237003805 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 907237003806 active site 907237003807 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 907237003808 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 907237003809 active site 907237003810 PHP Thumb interface [polypeptide binding]; other site 907237003811 metal binding site [ion binding]; metal-binding site 907237003812 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 907237003813 generic binding surface I; other site 907237003814 generic binding surface II; other site 907237003815 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 907237003816 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 907237003817 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 907237003818 mce related protein; Region: MCE; pfam02470 907237003819 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 907237003820 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 907237003821 Walker A/P-loop; other site 907237003822 ATP binding site [chemical binding]; other site 907237003823 Q-loop/lid; other site 907237003824 ABC transporter signature motif; other site 907237003825 Walker B; other site 907237003826 D-loop; other site 907237003827 H-loop/switch region; other site 907237003828 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 907237003829 conserved hypothetical integral membrane protein; Region: TIGR00056 907237003830 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237003831 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 907237003832 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 907237003833 homodimer interface [polypeptide binding]; other site 907237003834 substrate-cofactor binding pocket; other site 907237003835 catalytic residue [active] 907237003836 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237003837 DNA polymerase I; Region: pola; TIGR00593 907237003838 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 907237003839 active site 907237003840 metal binding site 1 [ion binding]; metal-binding site 907237003841 putative 5' ssDNA interaction site; other site 907237003842 metal binding site 3; metal-binding site 907237003843 metal binding site 2 [ion binding]; metal-binding site 907237003844 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 907237003845 putative DNA binding site [nucleotide binding]; other site 907237003846 putative metal binding site [ion binding]; other site 907237003847 3'-5' exonuclease; Region: 35EXOc; smart00474 907237003848 active site 907237003849 substrate binding site [chemical binding]; other site 907237003850 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 907237003851 active site 907237003852 DNA binding site [nucleotide binding] 907237003853 catalytic site [active] 907237003854 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 907237003855 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 907237003856 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 907237003857 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 907237003858 thymidylate kinase; Validated; Region: tmk; PRK00698 907237003859 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 907237003860 TMP-binding site; other site 907237003861 ATP-binding site [chemical binding]; other site 907237003862 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 907237003863 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 907237003864 active site 907237003865 (T/H)XGH motif; other site 907237003866 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 907237003867 Flavoprotein; Region: Flavoprotein; pfam02441 907237003868 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 907237003869 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 907237003870 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 907237003871 Part of AAA domain; Region: AAA_19; pfam13245 907237003872 Family description; Region: UvrD_C_2; pfam13538 907237003873 TPR repeat; Region: TPR_11; pfam13414 907237003874 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 907237003875 TPR motif; other site 907237003876 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 907237003877 binding surface 907237003878 TPR motif; other site 907237003879 seryl-tRNA synthetase; Provisional; Region: PRK05431 907237003880 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 907237003881 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 907237003882 dimer interface [polypeptide binding]; other site 907237003883 active site 907237003884 motif 1; other site 907237003885 motif 2; other site 907237003886 motif 3; other site 907237003887 Predicted amidohydrolase [General function prediction only]; Region: COG0388 907237003888 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 907237003889 active site 907237003890 catalytic triad [active] 907237003891 dimer interface [polypeptide binding]; other site 907237003892 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14065 907237003893 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 907237003894 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 907237003895 S-adenosylmethionine binding site [chemical binding]; other site 907237003896 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 907237003897 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 907237003898 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 907237003899 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 907237003900 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 907237003901 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 907237003902 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 907237003903 HlyD family secretion protein; Region: HlyD_3; pfam13437 907237003904 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 907237003905 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 907237003906 Domain of unknown function DUF21; Region: DUF21; pfam01595 907237003907 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 907237003908 Transporter associated domain; Region: CorC_HlyC; smart01091 907237003909 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 907237003910 Phosphate transporter family; Region: PHO4; pfam01384 907237003911 NifU-like domain; Region: NifU; pfam01106 907237003912 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 907237003913 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 907237003914 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 907237003915 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 907237003916 putative active site [active] 907237003917 transaldolase; Provisional; Region: PRK03903 907237003918 catalytic residue [active] 907237003919 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 907237003920 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 907237003921 5S rRNA interface [nucleotide binding]; other site 907237003922 CTC domain interface [polypeptide binding]; other site 907237003923 L16 interface [polypeptide binding]; other site 907237003924 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 907237003925 putative active site [active] 907237003926 catalytic residue [active] 907237003927 Predicted permeases [General function prediction only]; Region: COG0795 907237003928 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 907237003929 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 907237003930 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 907237003931 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 907237003932 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 907237003933 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237003934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 907237003935 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 907237003936 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 907237003937 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 907237003938 metal-binding site [ion binding] 907237003939 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 907237003940 Soluble P-type ATPase [General function prediction only]; Region: COG4087 907237003941 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 907237003942 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 907237003943 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 907237003944 catalytic motif [active] 907237003945 Zn binding site [ion binding]; other site 907237003946 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 907237003947 RibD C-terminal domain; Region: RibD_C; cl17279 907237003948 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 907237003949 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 907237003950 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 907237003951 NAD(P) binding pocket [chemical binding]; other site 907237003952 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 907237003953 4Fe-4S binding domain; Region: Fer4_5; pfam12801 907237003954 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 907237003955 acyl-phosphate glycerol 3-phosphate acyltransferase; Region: TIGR00023 907237003956 FolB domain; Region: folB_dom; TIGR00526 907237003957 active site 907237003958 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 907237003959 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 907237003960 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 907237003961 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 907237003962 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 907237003963 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 907237003964 NusA N-terminal domain; Region: NusA_N; pfam08529 907237003965 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 907237003966 RNA binding site [nucleotide binding]; other site 907237003967 homodimer interface [polypeptide binding]; other site 907237003968 NusA-like KH domain; Region: KH_5; pfam13184 907237003969 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 907237003970 G-X-X-G motif; other site 907237003971 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 907237003972 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 907237003973 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 907237003974 Restriction endonuclease [Defense mechanisms]; Region: COG3587 907237003975 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 907237003976 ATP binding site [chemical binding]; other site 907237003977 putative Mg++ binding site [ion binding]; other site 907237003978 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 907237003979 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 907237003980 DNA methylase; Region: N6_N4_Mtase; cl17433 907237003981 DNA methylase; Region: N6_N4_Mtase; pfam01555 907237003982 DNA methylase; Region: N6_N4_Mtase; cl17433 907237003983 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 907237003984 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 907237003985 ssDNA binding site; other site 907237003986 generic binding surface II; other site 907237003987 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 907237003988 ATP binding site [chemical binding]; other site 907237003989 putative Mg++ binding site [ion binding]; other site 907237003990 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 907237003991 nucleotide binding region [chemical binding]; other site 907237003992 ATP-binding site [chemical binding]; other site 907237003993 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237003994 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 907237003995 active site 907237003996 putative catalytic site [active] 907237003997 DNA binding site [nucleotide binding] 907237003998 putative phosphate binding site [ion binding]; other site 907237003999 metal binding site A [ion binding]; metal-binding site 907237004000 AP binding site [nucleotide binding]; other site 907237004001 metal binding site B [ion binding]; metal-binding site 907237004002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 907237004003 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 907237004004 Walker A motif; other site 907237004005 ATP binding site [chemical binding]; other site 907237004006 Walker B motif; other site 907237004007 arginine finger; other site 907237004008 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 907237004009 DnaA box-binding interface [nucleotide binding]; other site 907237004010 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 907237004011 Protein of unknown function (DUF2443); Region: DUF2443; pfam10398 907237004012 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 907237004013 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 907237004014 glutaminase active site [active] 907237004015 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 907237004016 dimer interface [polypeptide binding]; other site 907237004017 active site 907237004018 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 907237004019 dimer interface [polypeptide binding]; other site 907237004020 active site 907237004021 Predicted alternative thymidylate synthase [Nucleotide transport and metabolism]; Region: THY1; COG1351 907237004022 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 907237004023 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 907237004024 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 907237004025 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 907237004026 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 907237004027 active site 907237004028 catalytic residues [active] 907237004029 DNA binding site [nucleotide binding] 907237004030 Int/Topo IB signature motif; other site 907237004031 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 907237004032 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 907237004033 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 907237004034 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 907237004035 P-loop; other site 907237004036 Magnesium ion binding site [ion binding]; other site 907237004037 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 907237004038 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 907237004039 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 907237004040 active site 907237004041 interdomain interaction site; other site 907237004042 putative metal-binding site [ion binding]; other site 907237004043 nucleotide binding site [chemical binding]; other site 907237004044 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 907237004045 domain I; other site 907237004046 DNA binding groove [nucleotide binding] 907237004047 phosphate binding site [ion binding]; other site 907237004048 domain II; other site 907237004049 domain III; other site 907237004050 nucleotide binding site [chemical binding]; other site 907237004051 catalytic site [active] 907237004052 domain IV; other site 907237004053 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 907237004054 Methyltransferase domain; Region: Methyltransf_26; pfam13659 907237004055 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 907237004056 DEAD-like helicases superfamily; Region: DEXDc; smart00487 907237004057 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 907237004058 helicase superfamily c-terminal domain; Region: HELICc; smart00490 907237004059 nucleotide binding region [chemical binding]; other site 907237004060 ATP-binding site [chemical binding]; other site 907237004061 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 907237004062 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 907237004063 Protein of unknown function DUF45; Region: DUF45; pfam01863 907237004064 potential frameshift: common BLAST hit: gi|208435401|ref|YP_002267067.1| iron (III) dicitrate transport protein 907237004065 Arginase family; Region: Arginase; cd09989 907237004066 active site 907237004067 Mn binding site [ion binding]; other site 907237004068 oligomer interface [polypeptide binding]; other site 907237004069 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 907237004070 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 907237004071 hexamer interface [polypeptide binding]; other site 907237004072 ligand binding site [chemical binding]; other site 907237004073 putative active site [active] 907237004074 NAD(P) binding site [chemical binding]; other site 907237004075 Protein of unknown function DUF262; Region: DUF262; pfam03235 907237004076 Uncharacterized conserved protein [Function unknown]; Region: COG1479 907237004077 Uncharacterized conserved protein [Function unknown]; Region: COG1479 907237004078 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 907237004079 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 907237004080 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 907237004081 ATP-NAD kinase; Region: NAD_kinase; pfam01513 907237004082 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 907237004083 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 907237004084 Walker A/P-loop; other site 907237004085 ATP binding site [chemical binding]; other site 907237004086 Q-loop/lid; other site 907237004087 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 907237004088 ABC transporter signature motif; other site 907237004089 Walker B; other site 907237004090 D-loop; other site 907237004091 H-loop/switch region; other site 907237004092 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 907237004093 Domain of unknown function (DUF814); Region: DUF814; pfam05670 907237004094 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 907237004095 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 907237004096 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 907237004097 active site 907237004098 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 907237004099 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 907237004100 substrate binding site [chemical binding]; other site 907237004101 hexamer interface [polypeptide binding]; other site 907237004102 metal binding site [ion binding]; metal-binding site 907237004103 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 907237004104 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 907237004105 active site 907237004106 catalytic site [active] 907237004107 substrate binding site [chemical binding]; other site 907237004108 elongation factor Ts; Provisional; Region: tsf; PRK09377 907237004109 UBA/TS-N domain; Region: UBA; pfam00627 907237004110 Elongation factor TS; Region: EF_TS; pfam00889 907237004111 Elongation factor TS; Region: EF_TS; pfam00889 907237004112 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 907237004113 rRNA interaction site [nucleotide binding]; other site 907237004114 S8 interaction site; other site 907237004115 putative laminin-1 binding site; other site 907237004116 putative recombination protein RecB; Provisional; Region: PRK13909 907237004117 Domain of unknown function (DUF19); Region: DUF19; pfam01579 907237004118 Family description; Region: UvrD_C_2; pfam13538 907237004119 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 907237004120 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14856 907237004121 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 907237004122 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 907237004123 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 907237004124 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 907237004125 Protein export membrane protein; Region: SecD_SecF; pfam02355 907237004126 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 907237004127 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 907237004128 HIGH motif; other site 907237004129 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 907237004130 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 907237004131 active site 907237004132 KMSKS motif; other site 907237004133 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 907237004134 tRNA binding surface [nucleotide binding]; other site 907237004135 anticodon binding site; other site 907237004136 Lipopolysaccharide-assembly; Region: LptE; pfam04390 907237004137 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 907237004138 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 907237004139 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 907237004140 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 907237004141 Peptidase family M23; Region: Peptidase_M23; pfam01551 907237004142 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 907237004143 Peptidase family M23; Region: Peptidase_M23; pfam01551 907237004144 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 907237004145 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 907237004146 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 907237004147 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 907237004148 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 907237004149 ATP binding site [chemical binding]; other site 907237004150 putative Mg++ binding site [ion binding]; other site 907237004151 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 907237004152 nucleotide binding region [chemical binding]; other site 907237004153 ATP-binding site [chemical binding]; other site 907237004154 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 907237004155 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 907237004156 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 907237004157 [2Fe-2S] cluster binding site [ion binding]; other site 907237004158 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 907237004159 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 907237004160 intrachain domain interface; other site 907237004161 interchain domain interface [polypeptide binding]; other site 907237004162 heme bH binding site [chemical binding]; other site 907237004163 Qi binding site; other site 907237004164 heme bL binding site [chemical binding]; other site 907237004165 Qo binding site; other site 907237004166 interchain domain interface [polypeptide binding]; other site 907237004167 intrachain domain interface; other site 907237004168 Qi binding site; other site 907237004169 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 907237004170 Qo binding site; other site 907237004171 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 907237004172 Cytochrome c; Region: Cytochrom_C; pfam00034 907237004173 Cytochrome c; Region: Cytochrom_C; cl11414 907237004174 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 907237004175 active site 907237004176 metal binding site [ion binding]; metal-binding site 907237004177 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 907237004178 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 907237004179 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 907237004180 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 907237004181 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 907237004182 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 907237004183 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 907237004184 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 907237004185 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 907237004186 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 907237004187 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 907237004188 putative ligand binding site [chemical binding]; other site 907237004189 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 907237004190 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 907237004191 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 907237004192 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 907237004193 dimer interface [polypeptide binding]; other site 907237004194 decamer (pentamer of dimers) interface [polypeptide binding]; other site 907237004195 catalytic triad [active] 907237004196 peroxidatic and resolving cysteines [active] 907237004197 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 907237004198 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 907237004199 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 907237004200 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 907237004201 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 907237004202 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 907237004203 G1 box; other site 907237004204 GTP/Mg2+ binding site [chemical binding]; other site 907237004205 Switch I region; other site 907237004206 G2 box; other site 907237004207 G3 box; other site 907237004208 Switch II region; other site 907237004209 G4 box; other site 907237004210 G5 box; other site 907237004211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 907237004212 OstA-like protein; Region: OstA; pfam03968 907237004213 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 907237004214 motif II; other site 907237004215 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 907237004216 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 907237004217 Sporulation related domain; Region: SPOR; pfam05036 907237004218 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 907237004219 N-acetyl-D-glucosamine binding site [chemical binding]; other site 907237004220 catalytic residue [active] 907237004221 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 907237004222 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 907237004223 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 907237004224 active site 907237004225 riboflavin synthase, alpha subunit; Region: ribE; TIGR00187 907237004226 Lumazine binding domain; Region: Lum_binding; pfam00677 907237004227 Lumazine binding domain; Region: Lum_binding; pfam00677 907237004228 flhB C-terminus-related protein; Region: flhB_rel; TIGR00789 907237004229 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 907237004230 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 907237004231 Walker A/P-loop; other site 907237004232 ATP binding site [chemical binding]; other site 907237004233 Q-loop/lid; other site 907237004234 ABC transporter signature motif; other site 907237004235 Walker B; other site 907237004236 D-loop; other site 907237004237 H-loop/switch region; other site 907237004238 NIL domain; Region: NIL; pfam09383 907237004239 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 907237004240 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 907237004241 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 907237004242 active site 907237004243 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 907237004244 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 907237004245 active site 907237004246 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 907237004247 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 907237004248 Mg++ binding site [ion binding]; other site 907237004249 putative catalytic motif [active] 907237004250 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 907237004251 active site 907237004252 hydrophilic channel; other site 907237004253 dimerization interface [polypeptide binding]; other site 907237004254 catalytic residues [active] 907237004255 active site lid [active] 907237004256 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 907237004257 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 907237004258 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 907237004259 metallohydrolase, glycoprotease/Kae1 family; Region: gcp_kae1; TIGR00329 907237004260 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 907237004261 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 907237004262 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 907237004263 hypothetical protein; Provisional; Region: PRK10236 907237004264 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 907237004265 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 907237004266 Initiator Replication protein; Region: Rep_3; pfam01051 907237004267 Fic/DOC family; Region: Fic; pfam02661 907237004268 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 907237004269 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 907237004270 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 907237004271 P-loop; other site 907237004272 Magnesium ion binding site [ion binding]; other site 907237004273 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 907237004274 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 907237004275 Walker A motif; other site 907237004276 ATP binding site [chemical binding]; other site 907237004277 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 907237004278 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 907237004279 Walker B motif; other site 907237004280 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 907237004281 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 907237004282 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 907237004283 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041