-- dump date 20140619_113327 -- class Genbank::misc_feature -- table misc_feature_note -- id note 563041000001 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 563041000002 putative RNA binding site [nucleotide binding]; other site 563041000003 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 563041000004 homopentamer interface [polypeptide binding]; other site 563041000005 active site 563041000006 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 563041000007 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 563041000008 active site clefts [active] 563041000009 zinc binding site [ion binding]; other site 563041000010 dimer interface [polypeptide binding]; other site 563041000011 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 563041000012 active site 563041000013 dimer interface [polypeptide binding]; other site 563041000014 pantoate--beta-alanine ligase; Region: panC; TIGR00018 563041000015 Pantoate-beta-alanine ligase; Region: PanC; cd00560 563041000016 active site 563041000017 ATP-binding site [chemical binding]; other site 563041000018 pantoate-binding site; other site 563041000019 HXXH motif; other site 563041000020 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041000021 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 563041000022 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 563041000023 ring oligomerisation interface [polypeptide binding]; other site 563041000024 ATP/Mg binding site [chemical binding]; other site 563041000025 stacking interactions; other site 563041000026 hinge regions; other site 563041000027 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 563041000028 oligomerisation interface [polypeptide binding]; other site 563041000029 mobile loop; other site 563041000030 roof hairpin; other site 563041000031 DNA primase, catalytic core; Region: dnaG; TIGR01391 563041000032 CHC2 zinc finger; Region: zf-CHC2; pfam01807 563041000033 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 563041000034 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 563041000035 active site 563041000036 metal binding site [ion binding]; metal-binding site 563041000037 interdomain interaction site; other site 563041000038 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 563041000039 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 563041000040 Ligand Binding Site [chemical binding]; other site 563041000041 TrbC/VIRB2 family; Region: TrbC; cl01583 563041000042 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 563041000043 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 563041000044 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 563041000045 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 563041000046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 563041000047 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 563041000048 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 563041000049 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 563041000050 active site 563041000051 phosphorylation site [posttranslational modification] 563041000052 intermolecular recognition site; other site 563041000053 dimerization interface [polypeptide binding]; other site 563041000054 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 563041000055 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 563041000056 dimer interface [polypeptide binding]; other site 563041000057 active site 563041000058 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 563041000059 catalytic residues [active] 563041000060 substrate binding site [chemical binding]; other site 563041000061 lipid A 1-phosphatase; Reviewed; Region: PRK09597 563041000062 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 563041000063 active site 563041000064 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 563041000065 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 563041000066 Sulfatase; Region: Sulfatase; pfam00884 563041000067 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041000068 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 563041000069 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 563041000070 dimer interface [polypeptide binding]; other site 563041000071 active site 563041000072 citrylCoA binding site [chemical binding]; other site 563041000073 NADH binding [chemical binding]; other site 563041000074 cationic pore residues; other site 563041000075 oxalacetate/citrate binding site [chemical binding]; other site 563041000076 coenzyme A binding site [chemical binding]; other site 563041000077 catalytic triad [active] 563041000078 isocitrate dehydrogenase; Validated; Region: PRK07362 563041000079 isocitrate dehydrogenase; Reviewed; Region: PRK07006 563041000080 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 563041000081 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 563041000082 AAA domain; Region: AAA_26; pfam13500 563041000083 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 563041000084 Ligand Binding Site [chemical binding]; other site 563041000085 Uncharacterized conserved protein [Function unknown]; Region: COG2127 563041000086 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 563041000087 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 563041000088 Walker A motif; other site 563041000089 ATP binding site [chemical binding]; other site 563041000090 Walker B motif; other site 563041000091 arginine finger; other site 563041000092 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 563041000093 Walker A motif; other site 563041000094 ATP binding site [chemical binding]; other site 563041000095 Walker B motif; other site 563041000096 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 563041000097 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 563041000098 tetramerization interface [polypeptide binding]; other site 563041000099 active site 563041000100 hypothetical protein; Provisional; Region: PRK03762 563041000101 PDZ domain; Region: PDZ_2; pfam13180 563041000102 protein binding site [polypeptide binding]; other site 563041000103 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 563041000104 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 563041000105 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 563041000106 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 563041000107 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 563041000108 VirB7 interaction site; other site 563041000109 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 563041000110 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 563041000111 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 563041000112 Substrate binding site; other site 563041000113 Cupin domain; Region: Cupin_2; cl17218 563041000114 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 563041000115 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 563041000116 NADP-binding site; other site 563041000117 homotetramer interface [polypeptide binding]; other site 563041000118 substrate binding site [chemical binding]; other site 563041000119 homodimer interface [polypeptide binding]; other site 563041000120 active site 563041000121 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 563041000122 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 563041000123 NADP binding site [chemical binding]; other site 563041000124 active site 563041000125 putative substrate binding site [chemical binding]; other site 563041000126 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 563041000127 dimerization interface [polypeptide binding]; other site 563041000128 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 563041000129 ATP binding site [chemical binding]; other site 563041000130 Acylphosphatase; Region: Acylphosphatase; pfam00708 563041000131 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 563041000132 HypF finger; Region: zf-HYPF; pfam07503 563041000133 HypF finger; Region: zf-HYPF; pfam07503 563041000134 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 563041000135 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957 563041000136 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 563041000137 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 563041000138 DNA methylase; Region: N6_N4_Mtase; pfam01555 563041000139 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 563041000140 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 563041000141 DNA binding site [nucleotide binding] 563041000142 substrate interaction site [chemical binding]; other site 563041000143 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 563041000144 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 563041000145 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 563041000146 Na binding site [ion binding]; other site 563041000147 Proline dehydrogenase; Region: Pro_dh; pfam01619 563041000148 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 563041000149 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 563041000150 Glutamate binding site [chemical binding]; other site 563041000151 NAD binding site [chemical binding]; other site 563041000152 catalytic residues [active] 563041000153 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 563041000154 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 563041000155 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 563041000156 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 563041000157 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 563041000158 G1 box; other site 563041000159 GTP/Mg2+ binding site [chemical binding]; other site 563041000160 G2 box; other site 563041000161 Switch I region; other site 563041000162 G3 box; other site 563041000163 Switch II region; other site 563041000164 G4 box; other site 563041000165 G5 box; other site 563041000166 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 563041000167 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 563041000168 dimer interface [polypeptide binding]; other site 563041000169 catalytic residues [active] 563041000170 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 563041000171 urease subunit beta; Provisional; Region: ureB; PRK13985 563041000172 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 563041000173 subunit interactions [polypeptide binding]; other site 563041000174 active site 563041000175 flap region; other site 563041000176 urease subunit alpha; Provisional; Region: PRK13986 563041000177 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 563041000178 alpha-gamma subunit interface [polypeptide binding]; other site 563041000179 beta-gamma subunit interface [polypeptide binding]; other site 563041000180 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 563041000181 gamma-beta subunit interface [polypeptide binding]; other site 563041000182 alpha-beta subunit interface [polypeptide binding]; other site 563041000183 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 563041000184 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 563041000185 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 563041000186 active site 563041000187 substrate binding site [chemical binding]; other site 563041000188 metal binding site [ion binding]; metal-binding site 563041000189 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 563041000190 peptide chain release factor 1; Validated; Region: prfA; PRK00591 563041000191 This domain is found in peptide chain release factors; Region: PCRF; smart00937 563041000192 RF-1 domain; Region: RF-1; pfam00472 563041000193 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041000194 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 563041000195 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 563041000196 23S rRNA interface [nucleotide binding]; other site 563041000197 L3 interface [polypeptide binding]; other site 563041000198 Predicted dehydrogenase [General function prediction only]; Region: COG0579 563041000199 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 563041000200 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 563041000201 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 563041000202 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 563041000203 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 563041000204 NlpC/P60 family; Region: NLPC_P60; pfam00877 563041000205 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 563041000206 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 563041000207 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 563041000208 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 563041000209 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 563041000210 DNA binding residues [nucleotide binding] 563041000211 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 563041000212 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 563041000213 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 563041000214 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 563041000215 DpnII restriction endonuclease; Region: DpnII; pfam04556 563041000216 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 563041000217 Methyltransferase domain; Region: Methyltransf_26; pfam13659 563041000218 DNA methylase; Region: N6_N4_Mtase; pfam01555 563041000219 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 563041000220 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 563041000221 NAD binding site [chemical binding]; other site 563041000222 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 563041000223 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 563041000224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 563041000225 catalytic residue [active] 563041000226 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 563041000227 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 563041000228 dimer interface [polypeptide binding]; other site 563041000229 putative CheW interface [polypeptide binding]; other site 563041000230 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 563041000231 Ligand Binding Site [chemical binding]; other site 563041000232 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041000233 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 563041000234 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 563041000235 metal-binding site 563041000236 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 563041000237 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 563041000238 dimerization interface [polypeptide binding]; other site 563041000239 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 563041000240 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 563041000241 dimer interface [polypeptide binding]; other site 563041000242 putative CheW interface [polypeptide binding]; other site 563041000243 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 563041000244 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 563041000245 active site 563041000246 metal binding site [ion binding]; metal-binding site 563041000247 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 563041000248 S-ribosylhomocysteinase; Provisional; Region: PRK02260 563041000249 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 563041000250 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 563041000251 homodimer interface [polypeptide binding]; other site 563041000252 substrate-cofactor binding pocket; other site 563041000253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 563041000254 catalytic residue [active] 563041000255 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 563041000256 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 563041000257 dimer interface [polypeptide binding]; other site 563041000258 pyridoxal 5'-phosphate binding site [chemical binding]; other site 563041000259 catalytic residue [active] 563041000260 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 563041000261 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 563041000262 nucleotide binding site [chemical binding]; other site 563041000263 NEF interaction site [polypeptide binding]; other site 563041000264 SBD interface [polypeptide binding]; other site 563041000265 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 563041000266 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 563041000267 dimer interface [polypeptide binding]; other site 563041000268 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 563041000269 heat-inducible transcription repressor; Provisional; Region: PRK03911 563041000270 hypothetical protein; Provisional; Region: PRK05834 563041000271 active site 563041000272 Zn2+ binding site [ion binding]; other site 563041000273 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 563041000274 flagellin B; Provisional; Region: PRK13588 563041000275 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 563041000276 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 563041000277 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 563041000278 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 563041000279 DNA topoisomerase I; Validated; Region: PRK05582 563041000280 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 563041000281 active site 563041000282 interdomain interaction site; other site 563041000283 putative metal-binding site [ion binding]; other site 563041000284 nucleotide binding site [chemical binding]; other site 563041000285 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 563041000286 domain I; other site 563041000287 DNA binding groove [nucleotide binding] 563041000288 phosphate binding site [ion binding]; other site 563041000289 domain II; other site 563041000290 domain III; other site 563041000291 nucleotide binding site [chemical binding]; other site 563041000292 catalytic site [active] 563041000293 domain IV; other site 563041000294 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 563041000295 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 563041000296 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 563041000297 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 563041000298 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 563041000299 FeS/SAM binding site; other site 563041000300 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 563041000301 phosphoenolpyruvate synthase; Validated; Region: PRK06464 563041000302 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 563041000303 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 563041000304 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 563041000305 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 563041000306 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 563041000307 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 563041000308 active site 563041000309 dimer interface [polypeptide binding]; other site 563041000310 motif 1; other site 563041000311 motif 2; other site 563041000312 motif 3; other site 563041000313 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 563041000314 anticodon binding site; other site 563041000315 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 563041000316 translation initiation factor IF-3; Region: infC; TIGR00168 563041000317 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 563041000318 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 563041000319 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 563041000320 23S rRNA binding site [nucleotide binding]; other site 563041000321 L21 binding site [polypeptide binding]; other site 563041000322 L13 binding site [polypeptide binding]; other site 563041000323 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041000324 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 563041000325 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 563041000326 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 563041000327 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 563041000328 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 563041000329 serine transporter; Region: stp; TIGR00814 563041000330 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG3200 563041000331 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 563041000332 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 563041000333 catalytic triad [active] 563041000334 Uncharacterized conserved protein [Function unknown]; Region: COG1556 563041000335 iron-sulfur cluster-binding protein; Region: TIGR00273 563041000336 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 563041000337 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 563041000338 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 563041000339 Cysteine-rich domain; Region: CCG; pfam02754 563041000340 Cysteine-rich domain; Region: CCG; pfam02754 563041000341 L-lactate transport; Region: lctP; TIGR00795 563041000342 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 563041000343 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 563041000344 L-lactate transport; Region: lctP; TIGR00795 563041000345 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 563041000346 DNA glycosylase MutY; Provisional; Region: PRK13910 563041000347 minor groove reading motif; other site 563041000348 helix-hairpin-helix signature motif; other site 563041000349 substrate binding pocket [chemical binding]; other site 563041000350 active site 563041000351 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 563041000352 DNA binding and oxoG recognition site [nucleotide binding] 563041000353 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 563041000354 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 563041000355 transmembrane helices; other site 563041000356 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 563041000357 Low-spin heme binding site [chemical binding]; other site 563041000358 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 563041000359 D-pathway; other site 563041000360 Putative water exit pathway; other site 563041000361 Binuclear center (active site) [active] 563041000362 K-pathway; other site 563041000363 Putative proton exit pathway; other site 563041000364 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 563041000365 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 563041000366 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 563041000367 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 563041000368 Cytochrome c; Region: Cytochrom_C; pfam00034 563041000369 Cytochrome c; Region: Cytochrom_C; pfam00034 563041000370 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 563041000371 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 563041000372 recombinase A; Provisional; Region: recA; PRK09354 563041000373 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 563041000374 hexamer interface [polypeptide binding]; other site 563041000375 Walker A motif; other site 563041000376 ATP binding site [chemical binding]; other site 563041000377 Walker B motif; other site 563041000378 enolase; Provisional; Region: eno; PRK00077 563041000379 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 563041000380 dimer interface [polypeptide binding]; other site 563041000381 metal binding site [ion binding]; metal-binding site 563041000382 substrate binding pocket [chemical binding]; other site 563041000383 rod shape-determining protein MreC; Provisional; Region: PRK13922 563041000384 AMIN domain; Region: AMIN; pfam11741 563041000385 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 563041000386 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 563041000387 ADP binding site [chemical binding]; other site 563041000388 magnesium binding site [ion binding]; other site 563041000389 putative shikimate binding site; other site 563041000390 Cache domain; Region: Cache_1; pfam02743 563041000391 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 563041000392 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 563041000393 Ligand binding site; other site 563041000394 metal-binding site 563041000395 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 563041000396 Sel1-like repeats; Region: SEL1; smart00671 563041000397 Sel1-like repeats; Region: SEL1; smart00671 563041000398 Sel1-like repeats; Region: SEL1; smart00671 563041000399 Sel1 repeat; Region: Sel1; cl02723 563041000400 Sel1-like repeats; Region: SEL1; smart00671 563041000401 Sel1-like repeats; Region: SEL1; smart00671 563041000402 hypothetical protein; Provisional; Region: PRK12378 563041000403 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 563041000404 dimer interface [polypeptide binding]; other site 563041000405 active site 563041000406 Schiff base residues; other site 563041000407 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 563041000408 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 563041000409 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 563041000410 dimer interface [polypeptide binding]; other site 563041000411 phosphorylation site [posttranslational modification] 563041000412 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 563041000413 ATP binding site [chemical binding]; other site 563041000414 Mg2+ binding site [ion binding]; other site 563041000415 G-X-G motif; other site 563041000416 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 563041000417 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 563041000418 active site 563041000419 phosphorylation site [posttranslational modification] 563041000420 intermolecular recognition site; other site 563041000421 dimerization interface [polypeptide binding]; other site 563041000422 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 563041000423 DNA binding site [nucleotide binding] 563041000424 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 563041000425 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 563041000426 Peptidase family U32; Region: Peptidase_U32; pfam01136 563041000427 peptide chain release factor 2; Region: prfB; TIGR00020 563041000428 This domain is found in peptide chain release factors; Region: PCRF; smart00937 563041000429 RF-1 domain; Region: RF-1; pfam00472 563041000430 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 563041000431 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 563041000432 dimer interface [polypeptide binding]; other site 563041000433 putative functional site; other site 563041000434 putative MPT binding site; other site 563041000435 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 563041000436 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 563041000437 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 563041000438 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 563041000439 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 563041000440 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 563041000441 intersubunit interface [polypeptide binding]; other site 563041000442 active site 563041000443 zinc binding site [ion binding]; other site 563041000444 Na+ binding site [ion binding]; other site 563041000445 elongation factor P; Validated; Region: PRK00529 563041000446 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 563041000447 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 563041000448 RNA binding site [nucleotide binding]; other site 563041000449 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 563041000450 RNA binding site [nucleotide binding]; other site 563041000451 pseudaminic acid synthase; Region: PseI; TIGR03586 563041000452 NeuB family; Region: NeuB; pfam03102 563041000453 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 563041000454 NeuB binding interface [polypeptide binding]; other site 563041000455 putative substrate binding site [chemical binding]; other site 563041000456 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 563041000457 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 563041000458 Walker A/P-loop; other site 563041000459 ATP binding site [chemical binding]; other site 563041000460 Q-loop/lid; other site 563041000461 ABC transporter signature motif; other site 563041000462 Walker B; other site 563041000463 D-loop; other site 563041000464 H-loop/switch region; other site 563041000465 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 563041000466 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 563041000467 active site 563041000468 catalytic triad [active] 563041000469 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 563041000470 Colicin V production protein; Region: Colicin_V; pfam02674 563041000471 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 563041000472 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 563041000473 dimer interface [polypeptide binding]; other site 563041000474 putative anticodon binding site; other site 563041000475 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 563041000476 motif 1; other site 563041000477 active site 563041000478 motif 2; other site 563041000479 motif 3; other site 563041000480 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 563041000481 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 563041000482 dimer interface [polypeptide binding]; other site 563041000483 active site 563041000484 glycine-pyridoxal phosphate binding site [chemical binding]; other site 563041000485 folate binding site [chemical binding]; other site 563041000486 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 563041000487 nucleotide binding site [chemical binding]; other site 563041000488 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 563041000489 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 563041000490 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 563041000491 PLD-like domain; Region: PLDc_2; pfam13091 563041000492 putative active site [active] 563041000493 catalytic site [active] 563041000494 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 563041000495 PLD-like domain; Region: PLDc_2; pfam13091 563041000496 putative active site [active] 563041000497 catalytic site [active] 563041000498 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 563041000499 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 563041000500 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 563041000501 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 563041000502 L-aspartate oxidase; Provisional; Region: PRK06175 563041000503 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 563041000504 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 563041000505 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 563041000506 Iron-sulfur protein interface; other site 563041000507 proximal heme binding site [chemical binding]; other site 563041000508 distal heme binding site [chemical binding]; other site 563041000509 dimer interface [polypeptide binding]; other site 563041000510 triosephosphate isomerase; Provisional; Region: PRK14567 563041000511 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 563041000512 substrate binding site [chemical binding]; other site 563041000513 dimer interface [polypeptide binding]; other site 563041000514 catalytic triad [active] 563041000515 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 563041000516 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 563041000517 NAD binding site [chemical binding]; other site 563041000518 homotetramer interface [polypeptide binding]; other site 563041000519 homodimer interface [polypeptide binding]; other site 563041000520 substrate binding site [chemical binding]; other site 563041000521 active site 563041000522 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 563041000523 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 563041000524 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 563041000525 trimer interface [polypeptide binding]; other site 563041000526 active site 563041000527 UDP-GlcNAc binding site [chemical binding]; other site 563041000528 lipid binding site [chemical binding]; lipid-binding site 563041000529 S-adenosylmethionine synthetase; Validated; Region: PRK05250 563041000530 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 563041000531 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 563041000532 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 563041000533 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 563041000534 active site 563041000535 multimer interface [polypeptide binding]; other site 563041000536 fatty acid/phospholipid synthesis protein PlsX; Region: plsX; TIGR00182 563041000537 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 563041000538 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 563041000539 dimer interface [polypeptide binding]; other site 563041000540 active site 563041000541 CoA binding pocket [chemical binding]; other site 563041000542 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 563041000543 Walker A/P-loop; other site 563041000544 ATP binding site [chemical binding]; other site 563041000545 AAA domain; Region: AAA_21; pfam13304 563041000546 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 563041000547 Walker B; other site 563041000548 D-loop; other site 563041000549 H-loop/switch region; other site 563041000550 antiporter inner membrane protein; Provisional; Region: PRK11670 563041000551 Domain of unknown function DUF59; Region: DUF59; pfam01883 563041000552 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 563041000553 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 563041000554 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 563041000555 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 563041000556 heat shock protein 90; Provisional; Region: PRK05218 563041000557 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 563041000558 ATP binding site [chemical binding]; other site 563041000559 Mg2+ binding site [ion binding]; other site 563041000560 G-X-G motif; other site 563041000561 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 563041000562 Sel1-like repeats; Region: SEL1; smart00671 563041000563 Sel1-like repeats; Region: SEL1; smart00671 563041000564 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 563041000565 TPR motif; other site 563041000566 binding surface 563041000567 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 563041000568 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 563041000569 metal binding site [ion binding]; metal-binding site 563041000570 dimer interface [polypeptide binding]; other site 563041000571 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 563041000572 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 563041000573 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 563041000574 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 563041000575 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 563041000576 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 563041000577 transmembrane helices; other site 563041000578 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 563041000579 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 563041000580 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: Dxr; TIGR00243 563041000581 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 563041000582 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 563041000583 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 563041000584 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 563041000585 substrate binding site [chemical binding]; other site 563041000586 Helix-turn-helix domain; Region: HTH_28; pfam13518 563041000587 cysteine desulfurase, NifS family, epsilon proteobacteria type; Region: nifS_epsilon; TIGR03403 563041000588 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 563041000589 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 563041000590 catalytic residue [active] 563041000591 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 563041000592 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 563041000593 trimerization site [polypeptide binding]; other site 563041000594 active site 563041000595 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 563041000596 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 563041000597 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 563041000598 DNA repair protein RadA; Region: sms; TIGR00416 563041000599 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 563041000600 Walker A motif/ATP binding site; other site 563041000601 ATP binding site [chemical binding]; other site 563041000602 Walker B motif; other site 563041000603 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 563041000604 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 563041000605 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 563041000606 SelR domain; Region: SelR; pfam01641 563041000607 Predicted permeases [General function prediction only]; Region: COG0730 563041000608 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041000609 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 563041000610 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 563041000611 Sulfate transporter family; Region: Sulfate_transp; pfam00916 563041000612 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041000613 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 563041000614 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 563041000615 Ligand binding site; other site 563041000616 oligomer interface; other site 563041000617 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 563041000618 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 563041000619 hypothetical protein; Provisional; Region: PRK04081 563041000620 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 563041000621 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 563041000622 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 563041000623 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 563041000624 binding surface 563041000625 TPR motif; other site 563041000626 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 563041000627 binding surface 563041000628 TPR motif; other site 563041000629 Sel1-like repeats; Region: SEL1; smart00671 563041000630 Sel1-like repeats; Region: SEL1; smart00671 563041000631 Cytochrome c; Region: Cytochrom_C; cl11414 563041000632 Porphobilinogen deaminase [Coenzyme metabolism]; Region: HemC; COG0181 563041000633 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 563041000634 domain interfaces; other site 563041000635 active site 563041000636 prolyl-tRNA synthetase, family II; Region: proS_fam_II; TIGR00409 563041000637 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 563041000638 dimer interface [polypeptide binding]; other site 563041000639 motif 1; other site 563041000640 active site 563041000641 motif 2; other site 563041000642 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 563041000643 putative deacylase active site [active] 563041000644 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 563041000645 active site 563041000646 motif 3; other site 563041000647 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 563041000648 anticodon binding site; other site 563041000649 glutamyl-tRNA reductase; Region: hemA; TIGR01035 563041000650 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 563041000651 tRNA; other site 563041000652 putative tRNA binding site [nucleotide binding]; other site 563041000653 putative NADP binding site [chemical binding]; other site 563041000654 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 563041000655 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 563041000656 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 563041000657 substrate binding pocket [chemical binding]; other site 563041000658 chain length determination region; other site 563041000659 substrate-Mg2+ binding site; other site 563041000660 catalytic residues [active] 563041000661 aspartate-rich region 1; other site 563041000662 active site lid residues [active] 563041000663 aspartate-rich region 2; other site 563041000664 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 563041000665 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 563041000666 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 563041000667 dimerization interface [polypeptide binding]; other site 563041000668 DPS ferroxidase diiron center [ion binding]; other site 563041000669 ion pore; other site 563041000670 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 563041000671 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 563041000672 dimer interface [polypeptide binding]; other site 563041000673 phosphorylation site [posttranslational modification] 563041000674 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 563041000675 ATP binding site [chemical binding]; other site 563041000676 Mg2+ binding site [ion binding]; other site 563041000677 G-X-G motif; other site 563041000678 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 563041000679 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 563041000680 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 563041000681 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 563041000682 ATP binding site [chemical binding]; other site 563041000683 Mg++ binding site [ion binding]; other site 563041000684 motif III; other site 563041000685 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 563041000686 nucleotide binding region [chemical binding]; other site 563041000687 ATP-binding site [chemical binding]; other site 563041000688 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 563041000689 SPFH domain / Band 7 family; Region: Band_7; pfam01145 563041000690 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 563041000691 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 563041000692 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 563041000693 Walker A/P-loop; other site 563041000694 ATP binding site [chemical binding]; other site 563041000695 Q-loop/lid; other site 563041000696 ABC transporter signature motif; other site 563041000697 Walker B; other site 563041000698 D-loop; other site 563041000699 H-loop/switch region; other site 563041000700 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 563041000701 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 563041000702 Walker A/P-loop; other site 563041000703 ATP binding site [chemical binding]; other site 563041000704 Q-loop/lid; other site 563041000705 ABC transporter signature motif; other site 563041000706 Walker B; other site 563041000707 D-loop; other site 563041000708 H-loop/switch region; other site 563041000709 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 563041000710 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 563041000711 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 563041000712 dimer interface [polypeptide binding]; other site 563041000713 conserved gate region; other site 563041000714 putative PBP binding loops; other site 563041000715 ABC-ATPase subunit interface; other site 563041000716 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041000717 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041000718 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 563041000719 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 563041000720 GDP-binding site [chemical binding]; other site 563041000721 ACT binding site; other site 563041000722 IMP binding site; other site 563041000723 Flagellar FliJ protein; Region: FliJ; pfam02050 563041000724 Uncharacterized conserved protein [Function unknown]; Region: COG3334 563041000725 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 563041000726 RIP metalloprotease RseP; Region: TIGR00054 563041000727 active site 563041000728 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 563041000729 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 563041000730 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 563041000731 generic binding surface II; other site 563041000732 generic binding surface I; other site 563041000733 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 563041000734 DNA methylase; Region: N6_N4_Mtase; pfam01555 563041000735 DNA methylase; Region: N6_N4_Mtase; pfam01555 563041000736 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 563041000737 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 563041000738 DNA methylase; Region: N6_N4_Mtase; pfam01555 563041000739 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 563041000740 Clp amino terminal domain; Region: Clp_N; pfam02861 563041000741 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 563041000742 Walker A motif; other site 563041000743 ATP binding site [chemical binding]; other site 563041000744 Walker B motif; other site 563041000745 arginine finger; other site 563041000746 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 563041000747 Walker A motif; other site 563041000748 ATP binding site [chemical binding]; other site 563041000749 Walker B motif; other site 563041000750 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 563041000751 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 563041000752 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 563041000753 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 563041000754 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 563041000755 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 563041000756 active site 563041000757 chlorohydrolase; Provisional; Region: PRK08418 563041000758 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 563041000759 active site 563041000760 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 563041000761 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 563041000762 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 563041000763 FeS/SAM binding site; other site 563041000764 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 563041000765 putative acyl-acceptor binding pocket; other site 563041000766 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 563041000767 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 563041000768 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 563041000769 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 563041000770 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 563041000771 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 563041000772 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 563041000773 putative active site [active] 563041000774 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 563041000775 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 563041000776 putative acyl-acceptor binding pocket; other site 563041000777 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 563041000778 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 563041000779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 563041000780 TrkA-C domain; Region: TrkA_C; pfam02080 563041000781 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 563041000782 active site 563041000783 dimer interface [polypeptide binding]; other site 563041000784 metal binding site [ion binding]; metal-binding site 563041000785 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 563041000786 Mechanosensitive ion channel; Region: MS_channel; pfam00924 563041000787 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 563041000788 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 563041000789 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 563041000790 FeS/SAM binding site; other site 563041000791 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 563041000792 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 563041000793 Walker A motif; other site 563041000794 ATP binding site [chemical binding]; other site 563041000795 Walker B motif; other site 563041000796 arginine finger; other site 563041000797 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 563041000798 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 563041000799 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 563041000800 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 563041000801 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 563041000802 Autotransporter beta-domain; Region: Autotransporter; pfam03797 563041000803 diaminopimelate decarboxylase; Region: lysA; TIGR01048 563041000804 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 563041000805 active site 563041000806 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 563041000807 substrate binding site [chemical binding]; other site 563041000808 catalytic residues [active] 563041000809 dimer interface [polypeptide binding]; other site 563041000810 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 563041000811 Uncharacterized conserved protein [Function unknown]; Region: COG4866 563041000812 aminodeoxychorismate synthase; Provisional; Region: PRK07508 563041000813 chorismate binding enzyme; Region: Chorismate_bind; cl10555 563041000814 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 563041000815 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 563041000816 substrate-cofactor binding pocket; other site 563041000817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 563041000818 catalytic residue [active] 563041000819 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 563041000820 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 563041000821 multimer interface [polypeptide binding]; other site 563041000822 active site 563041000823 catalytic triad [active] 563041000824 dimer interface [polypeptide binding]; other site 563041000825 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08412 563041000826 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 563041000827 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 563041000828 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 563041000829 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 563041000830 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 563041000831 peptide binding site [polypeptide binding]; other site 563041000832 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 563041000833 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 563041000834 dimer interface [polypeptide binding]; other site 563041000835 conserved gate region; other site 563041000836 putative PBP binding loops; other site 563041000837 ABC-ATPase subunit interface; other site 563041000838 dipeptide transporter; Provisional; Region: PRK10913 563041000839 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 563041000840 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 563041000841 dimer interface [polypeptide binding]; other site 563041000842 conserved gate region; other site 563041000843 putative PBP binding loops; other site 563041000844 ABC-ATPase subunit interface; other site 563041000845 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 563041000846 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 563041000847 Walker A/P-loop; other site 563041000848 ATP binding site [chemical binding]; other site 563041000849 Q-loop/lid; other site 563041000850 ABC transporter signature motif; other site 563041000851 Walker B; other site 563041000852 D-loop; other site 563041000853 H-loop/switch region; other site 563041000854 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 563041000855 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 563041000856 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 563041000857 Walker A/P-loop; other site 563041000858 ATP binding site [chemical binding]; other site 563041000859 Q-loop/lid; other site 563041000860 ABC transporter signature motif; other site 563041000861 Walker B; other site 563041000862 D-loop; other site 563041000863 H-loop/switch region; other site 563041000864 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 563041000865 GTPase CgtA; Reviewed; Region: obgE; PRK12299 563041000866 GTP1/OBG; Region: GTP1_OBG; pfam01018 563041000867 Obg GTPase; Region: Obg; cd01898 563041000868 G1 box; other site 563041000869 GTP/Mg2+ binding site [chemical binding]; other site 563041000870 Switch I region; other site 563041000871 G2 box; other site 563041000872 G3 box; other site 563041000873 Switch II region; other site 563041000874 G4 box; other site 563041000875 G5 box; other site 563041000876 Alginate lyase; Region: Alginate_lyase; pfam05426 563041000877 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 563041000878 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 563041000879 inhibitor-cofactor binding pocket; inhibition site 563041000880 pyridoxal 5'-phosphate binding site [chemical binding]; other site 563041000881 catalytic residue [active] 563041000882 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 563041000883 Predicted amidohydrolase [General function prediction only]; Region: COG0388 563041000884 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 563041000885 active site 563041000886 catalytic triad [active] 563041000887 dimer interface [polypeptide binding]; other site 563041000888 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 563041000889 active site 563041000890 catalytic site [active] 563041000891 Zn binding site [ion binding]; other site 563041000892 tetramer interface [polypeptide binding]; other site 563041000893 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 563041000894 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 563041000895 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 563041000896 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 563041000897 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 563041000898 Major Facilitator Superfamily; Region: MFS_1; pfam07690 563041000899 putative substrate translocation pore; other site 563041000900 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 563041000901 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041000902 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 563041000903 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 563041000904 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 563041000905 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 563041000906 arginyl-tRNA synthetase; Region: argS; TIGR00456 563041000907 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 563041000908 active site 563041000909 HIGH motif; other site 563041000910 KMSK motif region; other site 563041000911 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 563041000912 tRNA binding surface [nucleotide binding]; other site 563041000913 anticodon binding site; other site 563041000914 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 563041000915 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 563041000916 catalytic site [active] 563041000917 G-X2-G-X-G-K; other site 563041000918 nuclease NucT; Provisional; Region: PRK13912 563041000919 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 563041000920 putative active site [active] 563041000921 catalytic site [active] 563041000922 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041000923 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 563041000924 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 563041000925 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 563041000926 ligand binding site; other site 563041000927 tetramer interface; other site 563041000928 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 563041000929 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 563041000930 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 563041000931 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 563041000932 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 563041000933 NAD synthetase; Provisional; Region: PRK13980 563041000934 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 563041000935 homodimer interface [polypeptide binding]; other site 563041000936 NAD binding pocket [chemical binding]; other site 563041000937 ATP binding pocket [chemical binding]; other site 563041000938 Mg binding site [ion binding]; other site 563041000939 active-site loop [active] 563041000940 ketol-acid reductoisomerase; Provisional; Region: PRK05479 563041000941 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 563041000942 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 563041000943 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 563041000944 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 563041000945 Switch I; other site 563041000946 Switch II; other site 563041000947 cell division topological specificity factor MinE; Region: minE; TIGR01215 563041000948 DNA protecting protein DprA; Region: dprA; TIGR00732 563041000949 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 563041000950 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 563041000951 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 563041000952 Sel1 repeat; Region: Sel1; cl02723 563041000953 Sel1-like repeats; Region: SEL1; smart00671 563041000954 Sel1-like repeats; Region: SEL1; smart00671 563041000955 Sel1-like repeats; Region: SEL1; smart00671 563041000956 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 563041000957 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 563041000958 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 563041000959 active site 563041000960 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 563041000961 DHH family; Region: DHH; pfam01368 563041000962 DHHA1 domain; Region: DHHA1; pfam02272 563041000963 CTP synthetase; Validated; Region: pyrG; PRK05380 563041000964 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 563041000965 Catalytic site [active] 563041000966 active site 563041000967 UTP binding site [chemical binding]; other site 563041000968 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 563041000969 active site 563041000970 putative oxyanion hole; other site 563041000971 catalytic triad [active] 563041000972 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 563041000973 active site 563041000974 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 563041000975 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 563041000976 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 563041000977 flagellar motor switch protein FliG; Region: fliG; TIGR00207 563041000978 FliG C-terminal domain; Region: FliG_C; pfam01706 563041000979 flagellar assembly protein H; Validated; Region: fliH; PRK06669 563041000980 Flagellar assembly protein FliH; Region: FliH; pfam02108 563041000981 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 563041000982 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 563041000983 TPP-binding site; other site 563041000984 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 563041000985 PYR/PP interface [polypeptide binding]; other site 563041000986 dimer interface [polypeptide binding]; other site 563041000987 TPP binding site [chemical binding]; other site 563041000988 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 563041000989 GTP-binding protein LepA; Provisional; Region: PRK05433 563041000990 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 563041000991 G1 box; other site 563041000992 putative GEF interaction site [polypeptide binding]; other site 563041000993 GTP/Mg2+ binding site [chemical binding]; other site 563041000994 Switch I region; other site 563041000995 G2 box; other site 563041000996 G3 box; other site 563041000997 Switch II region; other site 563041000998 G4 box; other site 563041000999 G5 box; other site 563041001000 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 563041001001 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 563041001002 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 563041001003 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 563041001004 AAA domain; Region: AAA_21; pfam13304 563041001005 AAA ATPase domain; Region: AAA_15; pfam13175 563041001006 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 563041001007 Walker B; other site 563041001008 D-loop; other site 563041001009 H-loop/switch region; other site 563041001010 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 563041001011 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 563041001012 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 563041001013 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 563041001014 putative substrate translocation pore; other site 563041001015 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 563041001016 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 563041001017 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 563041001018 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 563041001019 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 563041001020 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 563041001021 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 563041001022 TPP-binding site [chemical binding]; other site 563041001023 dimer interface [polypeptide binding]; other site 563041001024 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 563041001025 PYR/PP interface [polypeptide binding]; other site 563041001026 dimer interface [polypeptide binding]; other site 563041001027 TPP binding site [chemical binding]; other site 563041001028 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 563041001029 riboflavin kinase/FMN adenylyltransferase; Region: ribF; TIGR00083 563041001030 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 563041001031 active site 563041001032 nucleotide binding site [chemical binding]; other site 563041001033 HIGH motif; other site 563041001034 KMSKS motif; other site 563041001035 Riboflavin kinase; Region: Flavokinase; smart00904 563041001036 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 563041001037 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 563041001038 RNA binding surface [nucleotide binding]; other site 563041001039 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 563041001040 S-adenosylmethionine binding site [chemical binding]; other site 563041001041 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 563041001042 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 563041001043 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 563041001044 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 563041001045 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 563041001046 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 563041001047 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 563041001048 Walker A/P-loop; other site 563041001049 ATP binding site [chemical binding]; other site 563041001050 Q-loop/lid; other site 563041001051 ABC transporter signature motif; other site 563041001052 Walker B; other site 563041001053 D-loop; other site 563041001054 H-loop/switch region; other site 563041001055 Predicted endonuclease distantly related to archaeal Holliday junction resolvase and Mrr-like restriction enzymes [Defense mechanisms]; Region: COG1787 563041001056 Restriction endonuclease; Region: Mrr_cat; pfam04471 563041001057 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 563041001058 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 563041001059 active site 563041001060 Zn binding site [ion binding]; other site 563041001061 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 563041001062 metal-binding site [ion binding] 563041001063 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 563041001064 metal-binding site [ion binding] 563041001065 fungal transcription factor regulatory middle homology region; Region: fungal_TF_MHR; cl17093 563041001066 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 563041001067 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 563041001068 Soluble P-type ATPase [General function prediction only]; Region: COG4087 563041001069 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 563041001070 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 563041001071 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 563041001072 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 563041001073 Walker A motif; other site 563041001074 ATP binding site [chemical binding]; other site 563041001075 Walker B motif; other site 563041001076 arginine finger; other site 563041001077 Peptidase family M41; Region: Peptidase_M41; pfam01434 563041001078 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 563041001079 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 563041001080 S-adenosylmethionine binding site [chemical binding]; other site 563041001081 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 563041001082 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 563041001083 active site 563041001084 phosphorylation site [posttranslational modification] 563041001085 intermolecular recognition site; other site 563041001086 dimerization interface [polypeptide binding]; other site 563041001087 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041001088 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 563041001089 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Region: gidB; TIGR00138 563041001090 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 563041001091 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 563041001092 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 563041001093 sec-independent translocase; Provisional; Region: PRK04098 563041001094 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 563041001095 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 563041001096 Walker A motif; other site 563041001097 ATP binding site [chemical binding]; other site 563041001098 Walker B motif; other site 563041001099 arginine finger; other site 563041001100 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 563041001101 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 563041001102 oligomerization interface [polypeptide binding]; other site 563041001103 active site 563041001104 metal binding site [ion binding]; metal-binding site 563041001105 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041001106 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041001107 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 563041001108 septum formation inhibitor; Reviewed; Region: minC; PRK00556 563041001109 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 563041001110 UDP-3-0-acyl N-acetylglucosamine deacetylase; Region: lpxC; TIGR00325 563041001111 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 563041001112 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 563041001113 homoserine kinase; Region: thrB; TIGR00191 563041001114 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 563041001115 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 563041001116 putative RNA binding cleft [nucleotide binding]; other site 563041001117 translation initiation factor IF-2; Region: IF-2; TIGR00487 563041001118 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 563041001119 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 563041001120 G1 box; other site 563041001121 putative GEF interaction site [polypeptide binding]; other site 563041001122 GTP/Mg2+ binding site [chemical binding]; other site 563041001123 Switch I region; other site 563041001124 G2 box; other site 563041001125 G3 box; other site 563041001126 Switch II region; other site 563041001127 G4 box; other site 563041001128 G5 box; other site 563041001129 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 563041001130 Translation-initiation factor 2; Region: IF-2; pfam11987 563041001131 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 563041001132 Ribosome-binding factor A; Region: RBFA; cl00542 563041001133 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 563041001134 Sm and related proteins; Region: Sm_like; cl00259 563041001135 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 563041001136 putative oligomer interface [polypeptide binding]; other site 563041001137 putative RNA binding site [nucleotide binding]; other site 563041001138 acetyl-CoA synthetase; Provisional; Region: PRK00174 563041001139 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 563041001140 active site 563041001141 CoA binding site [chemical binding]; other site 563041001142 acyl-activating enzyme (AAE) consensus motif; other site 563041001143 AMP binding site [chemical binding]; other site 563041001144 acetate binding site [chemical binding]; other site 563041001145 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 563041001146 putative active site [active] 563041001147 putative metal binding site [ion binding]; other site 563041001148 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 563041001149 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 563041001150 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 563041001151 active site 563041001152 intermolecular recognition site; other site 563041001153 dimerization interface [polypeptide binding]; other site 563041001154 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 563041001155 DNA binding site [nucleotide binding] 563041001156 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 563041001157 DHH family; Region: DHH; pfam01368 563041001158 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 563041001159 FHIPEP family; Region: FHIPEP; pfam00771 563041001160 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 563041001161 16S/18S rRNA binding site [nucleotide binding]; other site 563041001162 S13e-L30e interaction site [polypeptide binding]; other site 563041001163 25S rRNA binding site [nucleotide binding]; other site 563041001164 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 563041001165 O-Antigen ligase; Region: Wzy_C; pfam04932 563041001166 Dehydroquinase class II; Region: DHquinase_II; pfam01220 563041001167 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 563041001168 trimer interface [polypeptide binding]; other site 563041001169 active site 563041001170 dimer interface [polypeptide binding]; other site 563041001171 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 563041001172 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 563041001173 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 563041001174 active site 563041001175 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 563041001176 catalytic center binding site [active] 563041001177 ATP binding site [chemical binding]; other site 563041001178 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 563041001179 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 563041001180 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 563041001181 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 563041001182 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 563041001183 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 563041001184 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 563041001185 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 563041001186 DNA binding residues [nucleotide binding] 563041001187 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 563041001188 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 563041001189 flagellar motor switch protein FliY; Validated; Region: PRK08432 563041001190 flagellar motor switch protein FliN; Region: fliN; TIGR02480 563041001191 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 563041001192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 563041001193 ferric uptake regulator; Provisional; Region: fur; PRK09462 563041001194 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 563041001195 metal binding site 2 [ion binding]; metal-binding site 563041001196 putative DNA binding helix; other site 563041001197 metal binding site 1 [ion binding]; metal-binding site 563041001198 dimer interface [polypeptide binding]; other site 563041001199 structural Zn2+ binding site [ion binding]; other site 563041001200 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 563041001201 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 563041001202 Walker A motif; other site 563041001203 ATP binding site [chemical binding]; other site 563041001204 Walker B motif; other site 563041001205 arginine finger; other site 563041001206 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 563041001207 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 563041001208 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 563041001209 DNA binding residues [nucleotide binding] 563041001210 putative dimer interface [polypeptide binding]; other site 563041001211 chaperone protein DnaJ; Provisional; Region: PRK14299 563041001212 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 563041001213 HSP70 interaction site [polypeptide binding]; other site 563041001214 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 563041001215 substrate binding site [polypeptide binding]; other site 563041001216 dimer interface [polypeptide binding]; other site 563041001217 5'-3' exonuclease; Provisional; Region: PRK14976 563041001218 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 563041001219 putative active site [active] 563041001220 Helix-hairpin-helix class 2 (Pol1 family) motifs; Region: HhH2; smart00279 563041001221 DNA binding site [nucleotide binding] 563041001222 metal binding site [ion binding]; metal-binding site 563041001223 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 563041001224 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 563041001225 active site 563041001226 dimerization interface [polypeptide binding]; other site 563041001227 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 563041001228 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 563041001229 substrate binding site; other site 563041001230 dimer interface; other site 563041001231 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 563041001232 homotrimer interaction site [polypeptide binding]; other site 563041001233 zinc binding site [ion binding]; other site 563041001234 CDP-binding sites; other site 563041001235 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 563041001236 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 563041001237 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 563041001238 protein binding site [polypeptide binding]; other site 563041001239 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 563041001240 protein binding site [polypeptide binding]; other site 563041001241 S-methylmethionine transporter; Provisional; Region: PRK11387 563041001242 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 563041001243 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 563041001244 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 563041001245 putative NAD(P) binding site [chemical binding]; other site 563041001246 active site 563041001247 dihydrodipicolinate synthase; Region: dapA; TIGR00674 563041001248 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 563041001249 dimer interface [polypeptide binding]; other site 563041001250 active site 563041001251 catalytic residue [active] 563041001252 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 563041001253 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 563041001254 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 563041001255 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 563041001256 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 563041001257 quinone interaction residues [chemical binding]; other site 563041001258 active site 563041001259 catalytic residues [active] 563041001260 FMN binding site [chemical binding]; other site 563041001261 substrate binding site [chemical binding]; other site 563041001262 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 563041001263 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 563041001264 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 563041001265 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 563041001266 putative domain interface [polypeptide binding]; other site 563041001267 putative active site [active] 563041001268 catalytic site [active] 563041001269 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 563041001270 putative active site [active] 563041001271 putative domain interface [polypeptide binding]; other site 563041001272 catalytic site [active] 563041001273 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 563041001274 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 563041001275 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 563041001276 Methyltransferase domain; Region: Methyltransf_26; pfam13659 563041001277 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 563041001278 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 563041001279 ATP binding site [chemical binding]; other site 563041001280 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 563041001281 putative Mg++ binding site [ion binding]; other site 563041001282 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 563041001283 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 563041001284 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 563041001285 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 563041001286 putative metal binding site [ion binding]; other site 563041001287 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 563041001288 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 563041001289 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 563041001290 active site 563041001291 Zn binding site [ion binding]; other site 563041001292 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 563041001293 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 563041001294 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041001295 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 563041001296 molybdenum ABC transporter, periplasmic molybdate-binding protein; Region: modA; TIGR01256 563041001297 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 563041001298 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 563041001299 dimer interface [polypeptide binding]; other site 563041001300 conserved gate region; other site 563041001301 putative PBP binding loops; other site 563041001302 ABC-ATPase subunit interface; other site 563041001303 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 563041001304 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 563041001305 Walker A/P-loop; other site 563041001306 ATP binding site [chemical binding]; other site 563041001307 Q-loop/lid; other site 563041001308 ABC transporter signature motif; other site 563041001309 Walker B; other site 563041001310 D-loop; other site 563041001311 H-loop/switch region; other site 563041001312 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 563041001313 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 563041001314 active site 563041001315 HIGH motif; other site 563041001316 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 563041001317 active site 563041001318 KMSKS motif; other site 563041001319 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041001320 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 563041001321 Methyltransferase domain; Region: Methyltransf_26; pfam13659 563041001322 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 563041001323 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 563041001324 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 563041001325 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 563041001326 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 563041001327 G1 box; other site 563041001328 putative GEF interaction site [polypeptide binding]; other site 563041001329 GTP/Mg2+ binding site [chemical binding]; other site 563041001330 Switch I region; other site 563041001331 G2 box; other site 563041001332 G3 box; other site 563041001333 Switch II region; other site 563041001334 G4 box; other site 563041001335 G5 box; other site 563041001336 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 563041001337 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 563041001338 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 563041001339 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 563041001340 GIY-YIG motif/motif A; other site 563041001341 active site 563041001342 catalytic site [active] 563041001343 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 563041001344 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 563041001345 cofactor binding site; other site 563041001346 DNA binding site [nucleotide binding] 563041001347 substrate interaction site [chemical binding]; other site 563041001348 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 563041001349 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 563041001350 putative heme binding pocket [chemical binding]; other site 563041001351 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 563041001352 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 563041001353 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 563041001354 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 563041001355 Cation transport protein; Region: TrkH; cl17365 563041001356 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 563041001357 TrkA-N domain; Region: TrkA_N; pfam02254 563041001358 TrkA-C domain; Region: TrkA_C; pfam02080 563041001359 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 563041001360 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 563041001361 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 563041001362 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 563041001363 Mg++ binding site [ion binding]; other site 563041001364 putative catalytic motif [active] 563041001365 putative substrate binding site [chemical binding]; other site 563041001366 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 563041001367 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 563041001368 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 563041001369 Protein of unknown function (DUF493); Region: DUF493; cl01102 563041001370 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 563041001371 active site 563041001372 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 563041001373 Na2 binding site [ion binding]; other site 563041001374 putative substrate binding site 1 [chemical binding]; other site 563041001375 Na binding site 1 [ion binding]; other site 563041001376 putative substrate binding site 2 [chemical binding]; other site 563041001377 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 563041001378 Na2 binding site [ion binding]; other site 563041001379 putative substrate binding site 1 [chemical binding]; other site 563041001380 Na binding site 1 [ion binding]; other site 563041001381 putative substrate binding site 2 [chemical binding]; other site 563041001382 DNA polymerase III, beta subunit; Region: dnan; TIGR00663 563041001383 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 563041001384 putative DNA binding surface [nucleotide binding]; other site 563041001385 dimer interface [polypeptide binding]; other site 563041001386 beta-clamp/translesion DNA polymerase binding surface; other site 563041001387 beta-clamp/clamp loader binding surface; other site 563041001388 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 563041001389 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 563041001390 Mg2+ binding site [ion binding]; other site 563041001391 G-X-G motif; other site 563041001392 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 563041001393 anchoring element; other site 563041001394 dimer interface [polypeptide binding]; other site 563041001395 ATP binding site [chemical binding]; other site 563041001396 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 563041001397 active site 563041001398 putative metal-binding site [ion binding]; other site 563041001399 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 563041001400 R.Pab1 restriction endonuclease; Region: RE_R_Pab1; pfam09522 563041001401 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 563041001402 Peptidase family M23; Region: Peptidase_M23; pfam01551 563041001403 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 563041001404 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 563041001405 dimer interface [polypeptide binding]; other site 563041001406 ADP-ribose binding site [chemical binding]; other site 563041001407 active site 563041001408 nudix motif; other site 563041001409 metal binding site [ion binding]; metal-binding site 563041001410 FAD binding domain; Region: FAD_binding_4; pfam01565 563041001411 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 563041001412 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 563041001413 dihydrodipicolinate reductase; Region: dapB; TIGR00036 563041001414 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 563041001415 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 563041001416 glutamine synthetase, type I; Region: GlnA; TIGR00653 563041001417 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 563041001418 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 563041001419 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 563041001420 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 563041001421 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 563041001422 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 563041001423 active site 563041001424 HslU subunit interaction site [polypeptide binding]; other site 563041001425 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 563041001426 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 563041001427 Walker A motif; other site 563041001428 ATP binding site [chemical binding]; other site 563041001429 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 563041001430 Walker B motif; other site 563041001431 arginine finger; other site 563041001432 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 563041001433 GTPase [General function prediction only]; Region: Era; COG1159 563041001434 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 563041001435 G1 box; other site 563041001436 GTP/Mg2+ binding site [chemical binding]; other site 563041001437 Switch I region; other site 563041001438 G2 box; other site 563041001439 Switch II region; other site 563041001440 G3 box; other site 563041001441 G4 box; other site 563041001442 G5 box; other site 563041001443 KH domain; Region: KH_2; pfam07650 563041001444 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 563041001445 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 563041001446 Sel1-like repeats; Region: SEL1; smart00671 563041001447 DNA topoisomerase I; Validated; Region: PRK06599 563041001448 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 563041001449 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 563041001450 Walker A motif; other site 563041001451 ATP binding site [chemical binding]; other site 563041001452 Walker B motif; other site 563041001453 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 563041001454 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 563041001455 ATP binding site [chemical binding]; other site 563041001456 Walker A motif; other site 563041001457 hexamer interface [polypeptide binding]; other site 563041001458 Walker B motif; other site 563041001459 CagZ; Region: CagZ; pfam09053 563041001460 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 563041001461 Protein of unknown function (DUF3807); Region: DUF3807; pfam12720 563041001462 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 563041001463 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 563041001464 VirB7 interaction site; other site 563041001465 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 563041001466 Cag pathogenicity island protein Cag12; Region: Cag12; pfam13117 563041001467 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 563041001468 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 563041001469 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 563041001470 CagA exotoxin; Region: CagA; pfam03507 563041001471 CagA exotoxin; Region: CagA; pfam03507 563041001472 AAA domain; Region: AAA_12; pfam13087 563041001473 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 563041001474 transcription termination factor Rho; Provisional; Region: rho; PRK09376 563041001475 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 563041001476 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 563041001477 RNA binding site [nucleotide binding]; other site 563041001478 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 563041001479 multimer interface [polypeptide binding]; other site 563041001480 Walker A motif; other site 563041001481 ATP binding site [chemical binding]; other site 563041001482 Walker B motif; other site 563041001483 Ribosomal protein L31; Region: Ribosomal_L31; pfam01197 563041001484 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 563041001485 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 563041001486 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 563041001487 acetyl-CoA carboxylase, carboxyl transferase, alpha subunit; Region: accA; TIGR00513 563041001488 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 563041001489 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 563041001490 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 563041001491 dimer interface [polypeptide binding]; other site 563041001492 active site 563041001493 acyl carrier protein; Provisional; Region: acpP; PRK00982 563041001494 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 563041001495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 563041001496 NAD(P) binding site [chemical binding]; other site 563041001497 active site 563041001498 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 563041001499 Predicted membrane protein [Function unknown]; Region: COG3059 563041001500 diaminopimelate epimerase; Region: DapF; TIGR00652 563041001501 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 563041001502 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 563041001503 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 563041001504 Domain of unknown function DUF20; Region: UPF0118; pfam01594 563041001505 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 563041001506 FeS/SAM binding site; other site 563041001507 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 563041001508 GTP-binding protein YchF; Reviewed; Region: PRK09601 563041001509 YchF GTPase; Region: YchF; cd01900 563041001510 G1 box; other site 563041001511 GTP/Mg2+ binding site [chemical binding]; other site 563041001512 Switch I region; other site 563041001513 G2 box; other site 563041001514 Switch II region; other site 563041001515 G3 box; other site 563041001516 G4 box; other site 563041001517 G5 box; other site 563041001518 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 563041001519 multifunctional aminopeptidase A; Provisional; Region: PRK00913 563041001520 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 563041001521 interface (dimer of trimers) [polypeptide binding]; other site 563041001522 Substrate-binding/catalytic site; other site 563041001523 Zn-binding sites [ion binding]; other site 563041001524 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 563041001525 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 563041001526 active site 563041001527 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 563041001528 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 563041001529 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 563041001530 Peptidase family M50; Region: Peptidase_M50; pfam02163 563041001531 active site 563041001532 putative substrate binding region [chemical binding]; other site 563041001533 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 563041001534 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 563041001535 Catalytic site [active] 563041001536 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 563041001537 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 563041001538 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 563041001539 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 563041001540 homodimer interface [polypeptide binding]; other site 563041001541 NADP binding site [chemical binding]; other site 563041001542 substrate binding site [chemical binding]; other site 563041001543 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 563041001544 Sulfatase; Region: Sulfatase; pfam00884 563041001545 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 563041001546 BNR repeat-like domain; Region: BNR_2; pfam13088 563041001547 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 563041001548 active site 563041001549 substrate binding pocket [chemical binding]; other site 563041001550 dimer interface [polypeptide binding]; other site 563041001551 flagellar motor switch protein; Validated; Region: PRK08433 563041001552 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 563041001553 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 563041001554 minor groove reading motif; other site 563041001555 helix-hairpin-helix signature motif; other site 563041001556 substrate binding pocket [chemical binding]; other site 563041001557 active site 563041001558 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 563041001559 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 563041001560 Protein of unknown function; Region: DUF3971; pfam13116 563041001561 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 563041001562 YceG-like family; Region: YceG; pfam02618 563041001563 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 563041001564 dimerization interface [polypeptide binding]; other site 563041001565 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 563041001566 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 563041001567 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 563041001568 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 563041001569 dimer interface [polypeptide binding]; other site 563041001570 PYR/PP interface [polypeptide binding]; other site 563041001571 TPP binding site [chemical binding]; other site 563041001572 substrate binding site [chemical binding]; other site 563041001573 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 563041001574 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 563041001575 TPP-binding site [chemical binding]; other site 563041001576 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 563041001577 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 563041001578 Restriction endonuclease [Defense mechanisms]; Region: COG3587 563041001579 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 563041001580 ATP binding site [chemical binding]; other site 563041001581 putative Mg++ binding site [ion binding]; other site 563041001582 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 563041001583 DNA methylase; Region: N6_N4_Mtase; cl17433 563041001584 DNA methylase; Region: N6_N4_Mtase; pfam01555 563041001585 DNA methylase; Region: N6_N4_Mtase; pfam01555 563041001586 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 563041001587 tumor necrosis factor alpha-inducing protein; Reviewed; Region: PRK12303 563041001588 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 563041001589 Transglycosylase; Region: Transgly; pfam00912 563041001590 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 563041001591 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 563041001592 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 563041001593 catalytic residue [active] 563041001594 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 563041001595 dimer interface [polypeptide binding]; other site 563041001596 putative CheW interface [polypeptide binding]; other site 563041001597 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 563041001598 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 563041001599 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 563041001600 Walker A/P-loop; other site 563041001601 ATP binding site [chemical binding]; other site 563041001602 Q-loop/lid; other site 563041001603 ABC transporter signature motif; other site 563041001604 Walker B; other site 563041001605 D-loop; other site 563041001606 H-loop/switch region; other site 563041001607 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 563041001608 flagellin A; Reviewed; Region: PRK12584 563041001609 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 563041001610 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 563041001611 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 563041001612 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 563041001613 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 563041001614 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 563041001615 minor groove reading motif; other site 563041001616 helix-hairpin-helix signature motif; other site 563041001617 active site 563041001618 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 563041001619 substrate binding site [chemical binding]; other site 563041001620 active site 563041001621 Outer membrane efflux protein; Region: OEP; pfam02321 563041001622 Outer membrane efflux protein; Region: OEP; pfam02321 563041001623 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 563041001624 HlyD family secretion protein; Region: HlyD_3; pfam13437 563041001625 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 563041001626 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041001627 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 563041001628 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 563041001629 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 563041001630 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 563041001631 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 563041001632 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 563041001633 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 563041001634 Autotransporter beta-domain; Region: Autotransporter; pfam03797 563041001635 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 563041001636 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 563041001637 Walker A/P-loop; other site 563041001638 ATP binding site [chemical binding]; other site 563041001639 Q-loop/lid; other site 563041001640 ABC transporter signature motif; other site 563041001641 Walker B; other site 563041001642 D-loop; other site 563041001643 H-loop/switch region; other site 563041001644 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 563041001645 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 563041001646 nucleotide binding pocket [chemical binding]; other site 563041001647 K-X-D-G motif; other site 563041001648 catalytic site [active] 563041001649 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 563041001650 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 563041001651 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 563041001652 Dimer interface [polypeptide binding]; other site 563041001653 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 563041001654 Response regulator receiver domain; Region: Response_reg; pfam00072 563041001655 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 563041001656 active site 563041001657 phosphorylation site [posttranslational modification] 563041001658 intermolecular recognition site; other site 563041001659 dimerization interface [polypeptide binding]; other site 563041001660 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 563041001661 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 563041001662 dimer interface [polypeptide binding]; other site 563041001663 anticodon binding site; other site 563041001664 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 563041001665 homodimer interface [polypeptide binding]; other site 563041001666 motif 1; other site 563041001667 active site 563041001668 motif 2; other site 563041001669 GAD domain; Region: GAD; pfam02938 563041001670 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 563041001671 active site 563041001672 motif 3; other site 563041001673 adenylate kinase; Reviewed; Region: adk; PRK00279 563041001674 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 563041001675 AMP-binding site [chemical binding]; other site 563041001676 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 563041001677 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 563041001678 Glycosyltransferase involved in LPS biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG3306 563041001679 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 563041001680 dimer interface [polypeptide binding]; other site 563041001681 substrate binding site [chemical binding]; other site 563041001682 metal binding sites [ion binding]; metal-binding site 563041001683 MutS2 family protein; Region: mutS2; TIGR01069 563041001684 ATPase domain of DNA mismatch repair MUTS family; Region: MUTSac; smart00534 563041001685 Walker A/P-loop; other site 563041001686 ATP binding site [chemical binding]; other site 563041001687 Q-loop/lid; other site 563041001688 ABC transporter signature motif; other site 563041001689 Walker B; other site 563041001690 D-loop; other site 563041001691 H-loop/switch region; other site 563041001692 Smr domain; Region: Smr; pfam01713 563041001693 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 563041001694 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 563041001695 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 563041001696 hypothetical protein; Provisional; Region: PRK05839 563041001697 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 563041001698 pyridoxal 5'-phosphate binding site [chemical binding]; other site 563041001699 homodimer interface [polypeptide binding]; other site 563041001700 catalytic residue [active] 563041001701 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 563041001702 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 563041001703 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 563041001704 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 563041001705 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 563041001706 putative trimer interface [polypeptide binding]; other site 563041001707 putative CoA binding site [chemical binding]; other site 563041001708 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 563041001709 Sel1-like repeats; Region: SEL1; smart00671 563041001710 Sel1-like repeats; Region: SEL1; smart00671 563041001711 Sel1 repeat; Region: Sel1; cl02723 563041001712 Sel1-like repeats; Region: SEL1; smart00671 563041001713 Uncharacterized conserved protein [Function unknown]; Region: COG1479 563041001714 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 563041001715 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 563041001716 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 563041001717 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 563041001718 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 563041001719 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 563041001720 Ni,Fe-hydrogenase I cytochrome b subunit [Energy production and conversion]; Region: HyaC; COG1969 563041001721 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 563041001722 nickel binding site [ion binding]; other site 563041001723 putative substrate-binding site; other site 563041001724 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041001725 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 563041001726 Ligand Binding Site [chemical binding]; other site 563041001727 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 563041001728 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 563041001729 active site 563041001730 NTP binding site [chemical binding]; other site 563041001731 metal binding triad [ion binding]; metal-binding site 563041001732 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 563041001733 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 563041001734 putative hydrophobic ligand binding site [chemical binding]; other site 563041001735 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 563041001736 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 563041001737 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 563041001738 dimer interface [polypeptide binding]; other site 563041001739 FMN binding site [chemical binding]; other site 563041001740 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 563041001741 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 563041001742 active site 563041001743 HIGH motif; other site 563041001744 nucleotide binding site [chemical binding]; other site 563041001745 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 563041001746 active site 563041001747 KMSKS motif; other site 563041001748 YGGT family; Region: YGGT; pfam02325 563041001749 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 563041001750 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 563041001751 N-acetyl-D-glucosamine binding site [chemical binding]; other site 563041001752 catalytic residue [active] 563041001753 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 563041001754 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 563041001755 active site 563041001756 tetramer interface; other site 563041001757 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 563041001758 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 563041001759 hinge; other site 563041001760 active site 563041001761 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 563041001762 Aspartase; Region: Aspartase; cd01357 563041001763 active sites [active] 563041001764 tetramer interface [polypeptide binding]; other site 563041001765 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_2; cd10034 563041001766 putative uracil binding site [chemical binding]; other site 563041001767 putative active site [active] 563041001768 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 563041001769 phosphoserine phosphatase SerB; Region: serB; TIGR00338 563041001770 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 563041001771 motif II; other site 563041001772 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 563041001773 Ferritin-like domain; Region: Ferritin; pfam00210 563041001774 ferroxidase diiron center [ion binding]; other site 563041001775 hypothetical protein; Provisional; Region: PRK08444 563041001776 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 563041001777 FeS/SAM binding site; other site 563041001778 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 563041001779 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 563041001780 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 563041001781 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 563041001782 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 563041001783 Surface antigen; Region: Bac_surface_Ag; pfam01103 563041001784 hypothetical protein; Provisional; Region: PRK08445 563041001785 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 563041001786 FeS/SAM binding site; other site 563041001787 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 563041001788 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 563041001789 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 563041001790 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 563041001791 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 563041001792 GatB domain; Region: GatB_Yqey; pfam02637 563041001793 SurA N-terminal domain; Region: SurA_N; pfam09312 563041001794 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 563041001795 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]; Region: COG1439 563041001796 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 563041001797 active site 563041001798 ribonuclease III; Reviewed; Region: rnc; PRK00102 563041001799 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 563041001800 dimerization interface [polypeptide binding]; other site 563041001801 active site 563041001802 metal binding site [ion binding]; metal-binding site 563041001803 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 563041001804 dsRNA binding site [nucleotide binding]; other site 563041001805 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 563041001806 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 563041001807 Tetramer interface [polypeptide binding]; other site 563041001808 active site 563041001809 FMN-binding site [chemical binding]; other site 563041001810 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 563041001811 oxygen-independent coproporphyrinogen III oxidase; Region: hemN; TIGR00538 563041001812 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 563041001813 FeS/SAM binding site; other site 563041001814 HemN C-terminal domain; Region: HemN_C; pfam06969 563041001815 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 563041001816 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 563041001817 Cysteine-rich domain; Region: CCG; pfam02754 563041001818 Cysteine-rich domain; Region: CCG; pfam02754 563041001819 Predicted helicase [General function prediction only]; Region: COG4889 563041001820 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041001821 aspartate aminotransferase; Provisional; Region: PRK05764 563041001822 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 563041001823 pyridoxal 5'-phosphate binding site [chemical binding]; other site 563041001824 homodimer interface [polypeptide binding]; other site 563041001825 catalytic residue [active] 563041001826 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 563041001827 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 563041001828 active site 563041001829 DNA binding site [nucleotide binding] 563041001830 Int/Topo IB signature motif; other site 563041001831 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 563041001832 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 563041001833 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 563041001834 DNA binding site [nucleotide binding] 563041001835 active site 563041001836 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 563041001837 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 563041001838 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 563041001839 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 563041001840 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 563041001841 ATP cone domain; Region: ATP-cone; pfam03477 563041001842 Class I ribonucleotide reductase; Region: RNR_I; cd01679 563041001843 active site 563041001844 dimer interface [polypeptide binding]; other site 563041001845 catalytic residues [active] 563041001846 effector binding site; other site 563041001847 R2 peptide binding site; other site 563041001848 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 563041001849 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 563041001850 Substrate binding site; other site 563041001851 Mg++ binding site; other site 563041001852 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 563041001853 active site 563041001854 substrate binding site [chemical binding]; other site 563041001855 CoA binding site [chemical binding]; other site 563041001856 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 563041001857 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 563041001858 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 563041001859 N-terminal plug; other site 563041001860 ligand-binding site [chemical binding]; other site 563041001861 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 563041001862 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 563041001863 G1 box; other site 563041001864 GTP/Mg2+ binding site [chemical binding]; other site 563041001865 Switch I region; other site 563041001866 G2 box; other site 563041001867 G3 box; other site 563041001868 Switch II region; other site 563041001869 G4 box; other site 563041001870 G5 box; other site 563041001871 Nucleoside recognition; Region: Gate; pfam07670 563041001872 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 563041001873 Nucleoside recognition; Region: Gate; pfam07670 563041001874 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 563041001875 active site 563041001876 catalytic site [active] 563041001877 substrate binding site [chemical binding]; other site 563041001878 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 563041001879 putative acyltransferase; Provisional; Region: PRK05790 563041001880 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 563041001881 dimer interface [polypeptide binding]; other site 563041001882 active site 563041001883 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 563041001884 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 563041001885 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 563041001886 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3528 563041001887 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 563041001888 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 563041001889 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 563041001890 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 563041001891 Protein of unknown function DUF262; Region: DUF262; pfam03235 563041001892 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 563041001893 DNA gyrase subunit A; Validated; Region: PRK05560 563041001894 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 563041001895 CAP-like domain; other site 563041001896 active site 563041001897 primary dimer interface [polypeptide binding]; other site 563041001898 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 563041001899 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 563041001900 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 563041001901 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 563041001902 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 563041001903 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 563041001904 Response regulator receiver domain; Region: Response_reg; pfam00072 563041001905 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 563041001906 active site 563041001907 phosphorylation site [posttranslational modification] 563041001908 intermolecular recognition site; other site 563041001909 dimerization interface [polypeptide binding]; other site 563041001910 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 563041001911 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 563041001912 Walker A motif; other site 563041001913 ATP binding site [chemical binding]; other site 563041001914 Walker B motif; other site 563041001915 arginine finger; other site 563041001916 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041001917 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 563041001918 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 563041001919 Uncharacterized conserved protein [Function unknown]; Region: COG1912 563041001920 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 563041001921 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 563041001922 Fic family protein [Function unknown]; Region: COG3177 563041001923 Fic/DOC family; Region: Fic; pfam02661 563041001924 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 563041001925 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 563041001926 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 563041001927 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 563041001928 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 563041001929 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 563041001930 Walker A/P-loop; other site 563041001931 ATP binding site [chemical binding]; other site 563041001932 Q-loop/lid; other site 563041001933 ABC transporter signature motif; other site 563041001934 Walker B; other site 563041001935 D-loop; other site 563041001936 H-loop/switch region; other site 563041001937 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 563041001938 Lysine efflux permease [General function prediction only]; Region: COG1279 563041001939 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 563041001940 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 563041001941 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041001942 anaerobic c4-dicarboxylate membrane transporter family protein; Region: Dcu; TIGR00770 563041001943 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 563041001944 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 563041001945 active site 563041001946 homodimer interface [polypeptide binding]; other site 563041001947 homotetramer interface [polypeptide binding]; other site 563041001948 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041001949 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 563041001950 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 563041001951 FMN binding site [chemical binding]; other site 563041001952 active site 563041001953 catalytic residues [active] 563041001954 substrate binding site [chemical binding]; other site 563041001955 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 563041001956 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 563041001957 Ligand Binding Site [chemical binding]; other site 563041001958 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 563041001959 G1 box; other site 563041001960 GTP/Mg2+ binding site [chemical binding]; other site 563041001961 Switch I region; other site 563041001962 G3 box; other site 563041001963 Switch II region; other site 563041001964 G4 box; other site 563041001965 G5 box; other site 563041001966 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 563041001967 G1 box; other site 563041001968 GTP/Mg2+ binding site [chemical binding]; other site 563041001969 G2 box; other site 563041001970 Switch I region; other site 563041001971 G3 box; other site 563041001972 Switch II region; other site 563041001973 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 563041001974 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 563041001975 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 563041001976 FeS/SAM binding site; other site 563041001977 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 563041001978 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 563041001979 active site 563041001980 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 563041001981 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 563041001982 catalytic residue [active] 563041001983 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 563041001984 tetramer interfaces [polypeptide binding]; other site 563041001985 binuclear metal-binding site [ion binding]; other site 563041001986 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 563041001987 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 563041001988 ATP-grasp domain; Region: ATP-grasp_4; cl17255 563041001989 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 563041001990 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 563041001991 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 563041001992 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 563041001993 nucleotide binding site/active site [active] 563041001994 HIT family signature motif; other site 563041001995 catalytic residue [active] 563041001996 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 563041001997 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 563041001998 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 563041001999 active site 563041002000 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 563041002001 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 563041002002 Predicted GTPase [General function prediction only]; Region: COG3596 563041002003 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 563041002004 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 563041002005 RNA binding surface [nucleotide binding]; other site 563041002006 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 563041002007 active site 563041002008 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 563041002009 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 563041002010 Interdomain contacts; other site 563041002011 Cytokine receptor motif; other site 563041002012 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 563041002013 Interdomain contacts; other site 563041002014 Cytokine receptor motif; other site 563041002015 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 563041002016 Interdomain contacts; other site 563041002017 Cytokine receptor motif; other site 563041002018 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 563041002019 S-adenosylmethionine binding site [chemical binding]; other site 563041002020 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 563041002021 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 563041002022 Walker A/P-loop; other site 563041002023 ATP binding site [chemical binding]; other site 563041002024 Q-loop/lid; other site 563041002025 ABC transporter signature motif; other site 563041002026 Walker B; other site 563041002027 D-loop; other site 563041002028 H-loop/switch region; other site 563041002029 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 563041002030 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 563041002031 Peptidase family M23; Region: Peptidase_M23; pfam01551 563041002032 flagellar protein FlaG; Provisional; Region: PRK08452 563041002033 flagellar capping protein; Validated; Region: fliD; PRK08453 563041002034 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 563041002035 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 563041002036 flagellar biosynthetic protein FliS; Region: fliS; TIGR00208 563041002037 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 563041002038 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 563041002039 putative ATP binding site [chemical binding]; other site 563041002040 putative substrate interface [chemical binding]; other site 563041002041 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 563041002042 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 563041002043 putative active site; other site 563041002044 catalytic triad [active] 563041002045 putative dimer interface [polypeptide binding]; other site 563041002046 Predicted permease [General function prediction only]; Region: COG2056 563041002047 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 563041002048 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 563041002049 putative efflux protein, MATE family; Region: matE; TIGR00797 563041002050 phosphodiesterase; Provisional; Region: PRK12704 563041002051 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 563041002052 nucleic acid binding region [nucleotide binding]; other site 563041002053 G-X-X-G motif; other site 563041002054 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 563041002055 Zn2+ binding site [ion binding]; other site 563041002056 Mg2+ binding site [ion binding]; other site 563041002057 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 563041002058 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 563041002059 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 563041002060 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 563041002061 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 563041002062 Molybdenum cofactor biosynthesis enzyme [Coenzyme metabolism]; Region: MoaA; COG2896 563041002063 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 563041002064 FeS/SAM binding site; other site 563041002065 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 563041002066 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 563041002067 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 563041002068 GTP binding site; other site 563041002069 flagellar biosynthetic protein FlhB; Region: flhB; TIGR00328 563041002070 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 563041002071 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 563041002072 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 563041002073 active site 563041002074 metal binding site [ion binding]; metal-binding site 563041002075 Nitronate monooxygenase; Region: NMO; pfam03060 563041002076 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 563041002077 FMN binding site [chemical binding]; other site 563041002078 substrate binding site [chemical binding]; other site 563041002079 putative catalytic residue [active] 563041002080 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 563041002081 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 563041002082 active site 563041002083 HIGH motif; other site 563041002084 dimer interface [polypeptide binding]; other site 563041002085 KMSKS motif; other site 563041002086 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 563041002087 RNA binding surface [nucleotide binding]; other site 563041002088 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 563041002089 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 563041002090 Zn2+ binding site [ion binding]; other site 563041002091 Mg2+ binding site [ion binding]; other site 563041002092 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 563041002093 synthetase active site [active] 563041002094 NTP binding site [chemical binding]; other site 563041002095 metal binding site [ion binding]; metal-binding site 563041002096 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 563041002097 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 563041002098 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 563041002099 putative nucleotide binding site [chemical binding]; other site 563041002100 uridine monophosphate binding site [chemical binding]; other site 563041002101 homohexameric interface [polypeptide binding]; other site 563041002102 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 563041002103 aconitate hydratase 2; Region: acnB; TIGR00117 563041002104 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 563041002105 substrate binding site [chemical binding]; other site 563041002106 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 563041002107 substrate binding site [chemical binding]; other site 563041002108 ligand binding site [chemical binding]; other site 563041002109 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 563041002110 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 563041002111 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 563041002112 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 563041002113 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 563041002114 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 563041002115 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 563041002116 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 563041002117 nucleotide binding region [chemical binding]; other site 563041002118 ATP-binding site [chemical binding]; other site 563041002119 SEC-C motif; Region: SEC-C; pfam02810 563041002120 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 563041002121 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 563041002122 FtsX-like permease family; Region: FtsX; pfam02687 563041002123 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 563041002124 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 563041002125 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 563041002126 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 563041002127 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 563041002128 metal-binding site [ion binding] 563041002129 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 563041002130 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 563041002131 Soluble P-type ATPase [General function prediction only]; Region: COG4087 563041002132 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 563041002133 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 563041002134 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 563041002135 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 563041002136 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 563041002137 active site 563041002138 catalytic residues [active] 563041002139 metal binding site [ion binding]; metal-binding site 563041002140 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 563041002141 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 563041002142 oligomer interface [polypeptide binding]; other site 563041002143 active site residues [active] 563041002144 trigger factor; Provisional; Region: tig; PRK01490 563041002145 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 563041002146 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 563041002147 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041002148 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 563041002149 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 563041002150 trimer interface [polypeptide binding]; other site 563041002151 dimer interface [polypeptide binding]; other site 563041002152 putative active site [active] 563041002153 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 563041002154 MPT binding site; other site 563041002155 trimer interface [polypeptide binding]; other site 563041002156 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 563041002157 MoaE homodimer interface [polypeptide binding]; other site 563041002158 MoaD interaction [polypeptide binding]; other site 563041002159 active site residues [active] 563041002160 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 563041002161 MoaE interaction surface [polypeptide binding]; other site 563041002162 MoeB interaction surface [polypeptide binding]; other site 563041002163 thiocarboxylated glycine; other site 563041002164 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 563041002165 dimerization interface [polypeptide binding]; other site 563041002166 active site 563041002167 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 563041002168 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 563041002169 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: ribB; TIGR00506 563041002170 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 563041002171 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 563041002172 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 563041002173 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 563041002174 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 563041002175 N-terminal plug; other site 563041002176 ligand-binding site [chemical binding]; other site 563041002177 holo-[acyl-carrier-protein] synthase; Region: acpS; TIGR00516 563041002178 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 563041002179 RNA methyltransferase, RsmD family; Region: TIGR00095 563041002180 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 563041002181 Uncharacterized conserved protein [Function unknown]; Region: COG1565 563041002182 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 563041002183 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 563041002184 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 563041002185 ATP binding site [chemical binding]; other site 563041002186 substrate interface [chemical binding]; other site 563041002187 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 563041002188 flagellar motor protein MotA; Validated; Region: PRK08456 563041002189 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 563041002190 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 563041002191 ligand binding site [chemical binding]; other site 563041002192 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 563041002193 Recombination endonuclease VII; Region: Endonuclease_7; pfam02945 563041002194 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 563041002195 DNA methylase; Region: N6_N4_Mtase; pfam01555 563041002196 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 563041002197 dimer interface [polypeptide binding]; other site 563041002198 conserved gate region; other site 563041002199 ABC-ATPase subunit interface; other site 563041002200 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 563041002201 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 563041002202 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 563041002203 Walker A/P-loop; other site 563041002204 ATP binding site [chemical binding]; other site 563041002205 Q-loop/lid; other site 563041002206 ABC transporter signature motif; other site 563041002207 Walker B; other site 563041002208 D-loop; other site 563041002209 H-loop/switch region; other site 563041002210 excinuclease ABC, C subunit; Region: uvrC; TIGR00194 563041002211 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 563041002212 GIY-YIG motif/motif A; other site 563041002213 active site 563041002214 catalytic site [active] 563041002215 putative DNA binding site [nucleotide binding]; other site 563041002216 metal binding site [ion binding]; metal-binding site 563041002217 UvrB/uvrC motif; Region: UVR; pfam02151 563041002218 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 563041002219 homoserine dehydrogenase; Provisional; Region: PRK06349 563041002220 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 563041002221 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 563041002222 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 563041002223 Uncharacterized protein family UPF0102; Region: UPF0102; pfam02021 563041002224 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 563041002225 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 563041002226 catalytic residues [active] 563041002227 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 563041002228 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 563041002229 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 563041002230 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 563041002231 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 563041002232 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 563041002233 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 563041002234 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 563041002235 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 563041002236 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 563041002237 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 563041002238 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 563041002239 active site 563041002240 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, A subunit; Region: gatA; TIGR00132 563041002241 indole acetimide hydrolase; Validated; Region: PRK07488 563041002242 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 563041002243 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 563041002244 CoA-binding site [chemical binding]; other site 563041002245 spermidine synthase; Provisional; Region: speE; PRK00536 563041002246 spermidine synthase; Provisional; Region: PRK00811 563041002247 GTP-binding protein Der; Reviewed; Region: PRK00093 563041002248 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 563041002249 G1 box; other site 563041002250 GTP/Mg2+ binding site [chemical binding]; other site 563041002251 Switch I region; other site 563041002252 G2 box; other site 563041002253 Switch II region; other site 563041002254 G3 box; other site 563041002255 G4 box; other site 563041002256 G5 box; other site 563041002257 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 563041002258 G1 box; other site 563041002259 GTP/Mg2+ binding site [chemical binding]; other site 563041002260 Switch I region; other site 563041002261 G2 box; other site 563041002262 G3 box; other site 563041002263 Switch II region; other site 563041002264 G4 box; other site 563041002265 G5 box; other site 563041002266 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 563041002267 IHF dimer interface [polypeptide binding]; other site 563041002268 IHF - DNA interface [nucleotide binding]; other site 563041002269 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 563041002270 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 563041002271 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 563041002272 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 563041002273 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 563041002274 NAD(P) binding site [chemical binding]; other site 563041002275 homodimer interface [polypeptide binding]; other site 563041002276 substrate binding site [chemical binding]; other site 563041002277 active site 563041002278 phosphopantothenoylcysteine decarboxylase / phosphopantothenate--cysteine ligase; Region: coaBC_dfp; TIGR00521 563041002279 Flavoprotein; Region: Flavoprotein; pfam02441 563041002280 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 563041002281 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 563041002282 thiamine phosphate binding site [chemical binding]; other site 563041002283 active site 563041002284 pyrophosphate binding site [ion binding]; other site 563041002285 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 563041002286 dimer interface [polypeptide binding]; other site 563041002287 substrate binding site [chemical binding]; other site 563041002288 ATP binding site [chemical binding]; other site 563041002289 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 563041002290 substrate binding site [chemical binding]; other site 563041002291 multimerization interface [polypeptide binding]; other site 563041002292 ATP binding site [chemical binding]; other site 563041002293 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 563041002294 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 563041002295 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 563041002296 ATP binding site [chemical binding]; other site 563041002297 putative Mg++ binding site [ion binding]; other site 563041002298 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 563041002299 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 563041002300 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 563041002301 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 563041002302 HsdM N-terminal domain; Region: HsdM_N; pfam12161 563041002303 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 563041002304 S-adenosylmethionine binding site [chemical binding]; other site 563041002305 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 563041002306 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 563041002307 active site 563041002308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2958 563041002309 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 563041002310 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 563041002311 Walker A/P-loop; other site 563041002312 ATP binding site [chemical binding]; other site 563041002313 Q-loop/lid; other site 563041002314 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 563041002315 ABC transporter; Region: ABC_tran_2; pfam12848 563041002316 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 563041002317 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 563041002318 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 563041002319 active site 563041002320 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 563041002321 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 563041002322 dimer interface [polypeptide binding]; other site 563041002323 active site 563041002324 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 563041002325 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 563041002326 putative ribose interaction site [chemical binding]; other site 563041002327 putative ADP binding site [chemical binding]; other site 563041002328 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 563041002329 active site 563041002330 nucleotide binding site [chemical binding]; other site 563041002331 HIGH motif; other site 563041002332 KMSKS motif; other site 563041002333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 563041002334 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 563041002335 NAD(P) binding site [chemical binding]; other site 563041002336 active site 563041002337 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 563041002338 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 563041002339 active site 563041002340 motif I; other site 563041002341 motif II; other site 563041002342 Uncharacterized conserved protein [Function unknown]; Region: COG2836 563041002343 pantothenate kinase; Reviewed; Region: PRK13333 563041002344 PQQ-like domain; Region: PQQ_2; pfam13360 563041002345 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 563041002346 trimer interface [polypeptide binding]; other site 563041002347 active site 563041002348 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 563041002349 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 563041002350 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 563041002351 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 563041002352 lipid-A-disaccharide synthase; Region: lpxB; TIGR00215 563041002353 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK00564 563041002354 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 563041002355 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 563041002356 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 563041002357 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 563041002358 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 563041002359 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 563041002360 CDP-diacylglycerol pyrophosphatase; Region: CDH; cl00934 563041002361 alkylphosphonate utilization operon protein PhnA; Region: phnA; TIGR00686 563041002362 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 563041002363 PhnA protein; Region: PhnA; pfam03831 563041002364 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 563041002365 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 563041002366 tetramer interface [polypeptide binding]; other site 563041002367 heme binding pocket [chemical binding]; other site 563041002368 NADPH binding site [chemical binding]; other site 563041002369 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 563041002370 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 563041002371 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 563041002372 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 563041002373 active site 563041002374 putative DNA-binding cleft [nucleotide binding]; other site 563041002375 dimer interface [polypeptide binding]; other site 563041002376 Uncharacterized conserved protein [Function unknown]; Region: COG1432 563041002377 LabA_like proteins; Region: LabA_like; cd06167 563041002378 putative metal binding site [ion binding]; other site 563041002379 Holliday junction DNA helicase, RuvA subunit; Region: ruvA; TIGR00084 563041002380 RuvA N terminal domain; Region: RuvA_N; pfam01330 563041002381 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 563041002382 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 563041002383 MviN-like protein; Region: MVIN; pfam03023 563041002384 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 563041002385 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 563041002386 active site 563041002387 HIGH motif; other site 563041002388 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 563041002389 KMSKS motif; other site 563041002390 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 563041002391 tRNA binding surface [nucleotide binding]; other site 563041002392 anticodon binding site; other site 563041002393 Vacuolating cyotoxin; Region: VacA; pfam02691 563041002394 Autotransporter beta-domain; Region: Autotransporter; pfam03797 563041002395 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 563041002396 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 563041002397 Walker A/P-loop; other site 563041002398 ATP binding site [chemical binding]; other site 563041002399 Q-loop/lid; other site 563041002400 ABC transporter signature motif; other site 563041002401 Walker B; other site 563041002402 D-loop; other site 563041002403 H-loop/switch region; other site 563041002404 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 563041002405 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 563041002406 ABC-ATPase subunit interface; other site 563041002407 dimer interface [polypeptide binding]; other site 563041002408 putative PBP binding regions; other site 563041002409 short chain dehydrogenase; Validated; Region: PRK06182 563041002410 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 563041002411 NADP binding site [chemical binding]; other site 563041002412 active site 563041002413 steroid binding site; other site 563041002414 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 563041002415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 563041002416 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 563041002417 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041002418 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 563041002419 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 563041002420 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 563041002421 hydrogenase accessory protein HypB; Region: hypB; TIGR00073 563041002422 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 563041002423 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 563041002424 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 563041002425 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 563041002426 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 563041002427 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 563041002428 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 563041002429 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 563041002430 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 563041002431 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 563041002432 S-adenosylmethionine binding site [chemical binding]; other site 563041002433 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 563041002434 Part of AAA domain; Region: AAA_19; pfam13245 563041002435 Family description; Region: UvrD_C_2; pfam13538 563041002436 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041002437 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041002438 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 563041002439 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 563041002440 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 563041002441 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 563041002442 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 563041002443 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 563041002444 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 563041002445 ATP-grasp domain; Region: ATP-grasp_4; cl17255 563041002446 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 563041002447 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 563041002448 ATP-grasp domain; Region: ATP-grasp_4; cl17255 563041002449 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 563041002450 IMP binding site; other site 563041002451 dimer interface [polypeptide binding]; other site 563041002452 interdomain contacts; other site 563041002453 partial ornithine binding site; other site 563041002454 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 563041002455 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 563041002456 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 563041002457 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 563041002458 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 563041002459 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 563041002460 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 563041002461 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 563041002462 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 563041002463 Autotransporter beta-domain; Region: Autotransporter; pfam03797 563041002464 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041002465 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 563041002466 active site 1 [active] 563041002467 dimer interface [polypeptide binding]; other site 563041002468 hexamer interface [polypeptide binding]; other site 563041002469 active site 2 [active] 563041002470 recombination protein RecR; Region: recR; TIGR00615 563041002471 RecR protein; Region: RecR; pfam02132 563041002472 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 563041002473 putative active site [active] 563041002474 putative metal-binding site [ion binding]; other site 563041002475 tetramer interface [polypeptide binding]; other site 563041002476 tRNA pseudouridine synthase, TruD family; Region: tRNA_TruD_broad; TIGR00094 563041002477 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 563041002478 Permutation of conserved domain; other site 563041002479 active site 563041002480 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 563041002481 heat shock protein HtpX; Provisional; Region: PRK02870 563041002482 GTP cyclohydrolase I; Region: folE; TIGR00063 563041002483 GTP cyclohydrolase I; Provisional; Region: PLN03044 563041002484 active site 563041002485 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 563041002486 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 563041002487 substrate binding pocket [chemical binding]; other site 563041002488 chain length determination region; other site 563041002489 substrate-Mg2+ binding site; other site 563041002490 catalytic residues [active] 563041002491 aspartate-rich region 1; other site 563041002492 active site lid residues [active] 563041002493 aspartate-rich region 2; other site 563041002494 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 563041002495 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 563041002496 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 563041002497 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 563041002498 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 563041002499 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 563041002500 Coenzyme A binding pocket [chemical binding]; other site 563041002501 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 563041002502 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041002503 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 563041002504 metabolite-proton symporter; Region: 2A0106; TIGR00883 563041002505 putative substrate translocation pore; other site 563041002506 Uncharacterized conserved protein [Function unknown]; Region: COG1479 563041002507 Protein of unknown function DUF262; Region: DUF262; pfam03235 563041002508 Protein of unknown function DUF262; Region: DUF262; pfam03235 563041002509 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 563041002510 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 563041002511 dimer interface [polypeptide binding]; other site 563041002512 conserved gate region; other site 563041002513 putative PBP binding loops; other site 563041002514 ABC-ATPase subunit interface; other site 563041002515 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 563041002516 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 563041002517 substrate binding pocket [chemical binding]; other site 563041002518 membrane-bound complex binding site; other site 563041002519 hinge residues; other site 563041002520 alanine racemase; Region: alr; TIGR00492 563041002521 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 563041002522 active site 563041002523 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 563041002524 dimer interface [polypeptide binding]; other site 563041002525 substrate binding site [chemical binding]; other site 563041002526 catalytic residues [active] 563041002527 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 563041002528 amino acid carrier protein; Region: agcS; TIGR00835 563041002529 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 563041002530 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 563041002531 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 563041002532 homotrimer interaction site [polypeptide binding]; other site 563041002533 putative active site [active] 563041002534 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 563041002535 Uncharacterized conserved protein [Function unknown]; Region: COG1576 563041002536 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 563041002537 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 563041002538 putative recombination protein RecO; Provisional; Region: PRK13908 563041002539 competence/damage-inducible protein CinA C-terminal domain; Region: cinA_cterm; TIGR00199 563041002540 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 563041002541 dimer interface [polypeptide binding]; other site 563041002542 FMN binding site [chemical binding]; other site 563041002543 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 563041002544 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 563041002545 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 563041002546 active site 563041002547 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 563041002548 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 563041002549 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 563041002550 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 563041002551 Putative zinc ribbon domain; Region: DUF164; pfam02591 563041002552 dinuclear metal center protein, YbgI/SA1388 family; Region: YbgI_SA1388; TIGR00486 563041002553 Uncharacterized conserved protein [Function unknown]; Region: COG0327 563041002554 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 563041002555 dimer interface [polypeptide binding]; other site 563041002556 motif 1; other site 563041002557 active site 563041002558 motif 2; other site 563041002559 motif 3; other site 563041002560 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 563041002561 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 563041002562 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 563041002563 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 563041002564 Dynamin family; Region: Dynamin_N; pfam00350 563041002565 G1 box; other site 563041002566 GTP/Mg2+ binding site [chemical binding]; other site 563041002567 G2 box; other site 563041002568 Switch I region; other site 563041002569 G3 box; other site 563041002570 Switch II region; other site 563041002571 G4 box; other site 563041002572 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 563041002573 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 563041002574 G1 box; other site 563041002575 GTP/Mg2+ binding site [chemical binding]; other site 563041002576 G2 box; other site 563041002577 Switch I region; other site 563041002578 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 563041002579 G3 box; other site 563041002580 Switch II region; other site 563041002581 G4 box; other site 563041002582 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 563041002583 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 563041002584 G3 box; other site 563041002585 Switch II region; other site 563041002586 G4 box; other site 563041002587 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 563041002588 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 563041002589 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 563041002590 Outer membrane efflux protein; Region: OEP; pfam02321 563041002591 Outer membrane efflux protein; Region: OEP; pfam02321 563041002592 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 563041002593 phosphoglyceromutase; Provisional; Region: PRK05434 563041002594 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 563041002595 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, C subunit; Region: gatC; TIGR00135 563041002596 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 563041002597 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 563041002598 inhibitor-cofactor binding pocket; inhibition site 563041002599 pyridoxal 5'-phosphate binding site [chemical binding]; other site 563041002600 catalytic residue [active] 563041002601 SurA N-terminal domain; Region: SurA_N_3; cl07813 563041002602 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 563041002603 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 563041002604 cell division protein FtsA; Region: ftsA; TIGR01174 563041002605 Cell division protein FtsA; Region: FtsA; smart00842 563041002606 Cell division protein FtsA; Region: FtsA; pfam14450 563041002607 cell division protein FtsZ; Validated; Region: PRK09330 563041002608 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 563041002609 nucleotide binding site [chemical binding]; other site 563041002610 SulA interaction site; other site 563041002611 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 563041002612 active site 563041002613 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 563041002614 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 563041002615 Mechanosensitive ion channel; Region: MS_channel; pfam00924 563041002616 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 563041002617 AAA domain; Region: AAA_33; pfam13671 563041002618 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 563041002619 bifunctional UGMP family protein/serine/threonine protein kinase; Validated; Region: PRK09605 563041002620 Protein phosphatase 2C; Region: PP2C_2; pfam13672 563041002621 active site 563041002622 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 563041002623 metal ion-dependent adhesion site (MIDAS); other site 563041002624 Uncharacterized conserved protein [Function unknown]; Region: COG1479 563041002625 Protein of unknown function DUF262; Region: DUF262; pfam03235 563041002626 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 563041002627 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 563041002628 DHH family; Region: DHH; pfam01368 563041002629 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 563041002630 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 563041002631 active site 563041002632 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 563041002633 catalytic residues [active] 563041002634 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 563041002635 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 563041002636 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 563041002637 putative ADP-binding pocket [chemical binding]; other site 563041002638 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 563041002639 active site 2 [active] 563041002640 active site 1 [active] 563041002641 Methyltransferase domain; Region: Methyltransf_23; pfam13489 563041002642 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 563041002643 S-adenosylmethionine binding site [chemical binding]; other site 563041002644 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 563041002645 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 563041002646 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 563041002647 active site 563041002648 HIGH motif; other site 563041002649 KMSKS motif; other site 563041002650 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 563041002651 anticodon binding site; other site 563041002652 tRNA binding surface [nucleotide binding]; other site 563041002653 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 563041002654 dimer interface [polypeptide binding]; other site 563041002655 putative tRNA-binding site [nucleotide binding]; other site 563041002656 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 563041002657 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 563041002658 S-adenosylmethionine binding site [chemical binding]; other site 563041002659 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 563041002660 Mechanosensitive ion channel; Region: MS_channel; pfam00924 563041002661 Toprim-like; Region: Toprim_2; pfam13155 563041002662 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 563041002663 active site 563041002664 putative metal-binding site [ion binding]; other site 563041002665 interdomain interaction site; other site 563041002666 nucleotide binding site [chemical binding]; other site 563041002667 DNA topoisomerase; Region: Topoisom_bac; pfam01131 563041002668 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 563041002669 domain I; other site 563041002670 DNA binding groove [nucleotide binding] 563041002671 phosphate binding site [ion binding]; other site 563041002672 domain II; other site 563041002673 domain III; other site 563041002674 nucleotide binding site [chemical binding]; other site 563041002675 catalytic site [active] 563041002676 domain IV; other site 563041002677 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 563041002678 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 563041002679 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 563041002680 VirB7 interaction site; other site 563041002681 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 563041002682 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 563041002683 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 563041002684 Walker A motif; other site 563041002685 ATP binding site [chemical binding]; other site 563041002686 Walker B motif; other site 563041002687 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 563041002688 Walker A motif; other site 563041002689 ATP binding site [chemical binding]; other site 563041002690 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 563041002691 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 563041002692 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 563041002693 ParA-like protein; Provisional; Region: PHA02518 563041002694 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 563041002695 P-loop; other site 563041002696 Magnesium ion binding site [ion binding]; other site 563041002697 Methyltransferase domain; Region: Methyltransf_26; pfam13659 563041002698 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 563041002699 DEAD-like helicases superfamily; Region: DEXDc; smart00487 563041002700 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 563041002701 ATP binding site [chemical binding]; other site 563041002702 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 563041002703 helicase superfamily c-terminal domain; Region: HELICc; smart00490 563041002704 nucleotide binding region [chemical binding]; other site 563041002705 ATP-binding site [chemical binding]; other site 563041002706 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 563041002707 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 563041002708 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 563041002709 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 563041002710 active site 563041002711 catalytic residues [active] 563041002712 DNA binding site [nucleotide binding] 563041002713 Int/Topo IB signature motif; other site 563041002714 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 563041002715 GMP synthase; Reviewed; Region: guaA; PRK00074 563041002716 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 563041002717 AMP/PPi binding site [chemical binding]; other site 563041002718 candidate oxyanion hole; other site 563041002719 catalytic triad [active] 563041002720 potential glutamine specificity residues [chemical binding]; other site 563041002721 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 563041002722 ATP Binding subdomain [chemical binding]; other site 563041002723 Ligand Binding sites [chemical binding]; other site 563041002724 Dimerization subdomain; other site 563041002725 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 563041002726 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 563041002727 molybdopterin cofactor binding site [chemical binding]; other site 563041002728 substrate binding site [chemical binding]; other site 563041002729 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 563041002730 molybdopterin cofactor binding site; other site 563041002731 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 563041002732 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 563041002733 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 563041002734 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 563041002735 catalytic residue [active] 563041002736 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 563041002737 nucleotide binding site/active site [active] 563041002738 HIT family signature motif; other site 563041002739 catalytic residue [active] 563041002740 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 563041002741 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 563041002742 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 563041002743 dimer interface [polypeptide binding]; other site 563041002744 motif 1; other site 563041002745 active site 563041002746 motif 2; other site 563041002747 motif 3; other site 563041002748 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 563041002749 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 563041002750 putative tRNA-binding site [nucleotide binding]; other site 563041002751 tRNA synthetase B5 domain; Region: B5; pfam03484 563041002752 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 563041002753 dimer interface [polypeptide binding]; other site 563041002754 motif 1; other site 563041002755 motif 3; other site 563041002756 motif 2; other site 563041002757 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 563041002758 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 563041002759 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 563041002760 hinge; other site 563041002761 active site 563041002762 LytB protein; Region: LYTB; pfam02401 563041002763 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 563041002764 ribosomal protein S1; Region: rpsA; TIGR00717 563041002765 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 563041002766 RNA binding site [nucleotide binding]; other site 563041002767 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 563041002768 RNA binding site [nucleotide binding]; other site 563041002769 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 563041002770 RNA binding site [nucleotide binding]; other site 563041002771 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 563041002772 RNA binding site [nucleotide binding]; other site 563041002773 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 563041002774 RNA binding site [nucleotide binding]; other site 563041002775 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 563041002776 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 563041002777 ligand binding site [chemical binding]; other site 563041002778 NAD binding site [chemical binding]; other site 563041002779 dimerization interface [polypeptide binding]; other site 563041002780 catalytic site [active] 563041002781 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 563041002782 putative L-serine binding site [chemical binding]; other site 563041002783 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 563041002784 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 563041002785 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 563041002786 catalytic residue [active] 563041002787 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 563041002788 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 563041002789 putative active site [active] 563041002790 putative metal binding site [ion binding]; other site 563041002791 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 563041002792 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 563041002793 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 563041002794 active site 563041002795 phosphorylation site [posttranslational modification] 563041002796 intermolecular recognition site; other site 563041002797 dimerization interface [polypeptide binding]; other site 563041002798 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 563041002799 putative binding surface; other site 563041002800 active site 563041002801 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 563041002802 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 563041002803 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 563041002804 ATP binding site [chemical binding]; other site 563041002805 Mg2+ binding site [ion binding]; other site 563041002806 G-X-G motif; other site 563041002807 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 563041002808 Response regulator receiver domain; Region: Response_reg; pfam00072 563041002809 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 563041002810 active site 563041002811 phosphorylation site [posttranslational modification] 563041002812 intermolecular recognition site; other site 563041002813 dimerization interface [polypeptide binding]; other site 563041002814 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 563041002815 putative CheA interaction surface; other site 563041002816 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 563041002817 dimer interface [polypeptide binding]; other site 563041002818 catalytic triad [active] 563041002819 peroxidatic and resolving cysteines [active] 563041002820 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 563041002821 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 563041002822 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 563041002823 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 563041002824 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 563041002825 S-adenosylmethionine binding site [chemical binding]; other site 563041002826 primosomal protein N' Region: priA; TIGR00595 563041002827 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 563041002828 ATP binding site [chemical binding]; other site 563041002829 putative Mg++ binding site [ion binding]; other site 563041002830 helicase superfamily c-terminal domain; Region: HELICc; smart00490 563041002831 Sporulation related domain; Region: SPOR; pfam05036 563041002832 Peptidase family M48; Region: Peptidase_M48; pfam01435 563041002833 HemK family putative methylases; Region: hemK_fam; TIGR00536 563041002834 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 563041002835 glutamate dehydrogenase; Provisional; Region: PRK09414 563041002836 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 563041002837 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 563041002838 NAD(P) binding site [chemical binding]; other site 563041002839 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 563041002840 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 563041002841 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 563041002842 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 563041002843 catalytic residues [active] 563041002844 ferrochelatase; Region: hemH; TIGR00109 563041002845 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 563041002846 C-terminal domain interface [polypeptide binding]; other site 563041002847 active site 563041002848 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 563041002849 active site 563041002850 N-terminal domain interface [polypeptide binding]; other site 563041002851 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 563041002852 RNA methyltransferase, RsmE family; Region: TIGR00046 563041002853 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041002854 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 563041002855 trimer interface [polypeptide binding]; other site 563041002856 active site 563041002857 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 563041002858 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 563041002859 carboxyltransferase (CT) interaction site; other site 563041002860 biotinylation site [posttranslational modification]; other site 563041002861 biotin carboxylase; Validated; Region: PRK08462 563041002862 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 563041002863 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 563041002864 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 563041002865 Methyltransferase domain; Region: Methyltransf_26; pfam13659 563041002866 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 563041002867 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 563041002868 inhibitor-cofactor binding pocket; inhibition site 563041002869 pyridoxal 5'-phosphate binding site [chemical binding]; other site 563041002870 catalytic residue [active] 563041002871 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 563041002872 dimer interface [polypeptide binding]; other site 563041002873 putative radical transfer pathway; other site 563041002874 diiron center [ion binding]; other site 563041002875 tyrosyl radical; other site 563041002876 protein-L-isoaspartate(D-aspartate) O-methyltransferase; Region: pimt; TIGR00080 563041002877 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 563041002878 S-adenosylmethionine binding site [chemical binding]; other site 563041002879 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 563041002880 Predicted permeases [General function prediction only]; Region: COG0795 563041002881 tRNA pseudouridine(38-40) synthase; Region: hisT_truA; TIGR00071 563041002882 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 563041002883 dimerization interface 3.5A [polypeptide binding]; other site 563041002884 active site 563041002885 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 563041002886 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 563041002887 NAD binding site [chemical binding]; other site 563041002888 homodimer interface [polypeptide binding]; other site 563041002889 active site 563041002890 substrate binding site [chemical binding]; other site 563041002891 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 563041002892 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 563041002893 putative NAD(P) binding site [chemical binding]; other site 563041002894 homodimer interface [polypeptide binding]; other site 563041002895 homotetramer interface [polypeptide binding]; other site 563041002896 active site 563041002897 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 563041002898 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 563041002899 binding surface 563041002900 TPR motif; other site 563041002901 Sel1-like repeats; Region: SEL1; smart00671 563041002902 Sel1-like repeats; Region: SEL1; smart00671 563041002903 Sel1-like repeats; Region: SEL1; smart00671 563041002904 Entner-Doudoroff aldolase; Region: eda; TIGR01182 563041002905 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 563041002906 active site 563041002907 intersubunit interface [polypeptide binding]; other site 563041002908 catalytic residue [active] 563041002909 phosphogluconate dehydratase; Validated; Region: PRK09054 563041002910 6-phosphogluconate dehydratase; Region: edd; TIGR01196 563041002911 Glucose-6-phosphate 1-dehydrogenase [Carbohydrate transport and metabolism]; Region: Zwf; COG0364 563041002912 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 563041002913 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 563041002914 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 563041002915 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 563041002916 putative active site [active] 563041002917 glucokinase; Provisional; Region: glk; PRK00292 563041002918 glucokinase, proteobacterial type; Region: glk; TIGR00749 563041002919 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 563041002920 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 563041002921 putative NAD(P) binding site [chemical binding]; other site 563041002922 putative substrate binding site [chemical binding]; other site 563041002923 catalytic Zn binding site [ion binding]; other site 563041002924 structural Zn binding site [ion binding]; other site 563041002925 dimer interface [polypeptide binding]; other site 563041002926 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 563041002927 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 563041002928 active site 563041002929 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041002930 pyruvate flavodoxin oxidoreductase subunit gamma; Validated; Region: PRK05844 563041002931 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 563041002932 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 563041002933 4Fe-4S binding domain; Region: Fer4; pfam00037 563041002934 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 563041002935 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 563041002936 dimer interface [polypeptide binding]; other site 563041002937 PYR/PP interface [polypeptide binding]; other site 563041002938 TPP binding site [chemical binding]; other site 563041002939 substrate binding site [chemical binding]; other site 563041002940 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 563041002941 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 563041002942 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 563041002943 TPP-binding site [chemical binding]; other site 563041002944 putative dimer interface [polypeptide binding]; other site 563041002945 adenylosuccinate lyase; Provisional; Region: PRK08470 563041002946 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 563041002947 tetramer interface [polypeptide binding]; other site 563041002948 active site 563041002949 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 563041002950 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041002951 excinuclease ABC subunit B; Provisional; Region: PRK05298 563041002952 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 563041002953 ATP binding site [chemical binding]; other site 563041002954 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 563041002955 putative Mg++ binding site [ion binding]; other site 563041002956 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 563041002957 nucleotide binding region [chemical binding]; other site 563041002958 ATP-binding site [chemical binding]; other site 563041002959 Ultra-violet resistance protein B; Region: UvrB; pfam12344 563041002960 UvrB/uvrC motif; Region: UVR; pfam02151 563041002961 AAA domain; Region: AAA_13; pfam13166 563041002962 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 563041002963 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 563041002964 binding surface 563041002965 TPR motif; other site 563041002966 Sel1-like repeats; Region: SEL1; smart00671 563041002967 Sel1-like repeats; Region: SEL1; smart00671 563041002968 Sel1-like repeats; Region: SEL1; smart00671 563041002969 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 563041002970 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 563041002971 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 563041002972 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 563041002973 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 563041002974 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 563041002975 cofactor binding site; other site 563041002976 DNA binding site [nucleotide binding] 563041002977 substrate interaction site [chemical binding]; other site 563041002978 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 563041002979 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 563041002980 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 563041002981 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 563041002982 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 563041002983 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 563041002984 ligand binding site [chemical binding]; other site 563041002985 translocation protein TolB; Provisional; Region: tolB; PRK04043 563041002986 TolB amino-terminal domain; Region: TolB_N; pfam04052 563041002987 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 563041002988 TonB C terminal; Region: TonB_2; pfam13103 563041002989 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 563041002990 TolR protein; Region: tolR; TIGR02801 563041002991 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 563041002992 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 563041002993 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 563041002994 gamma subunit interface [polypeptide binding]; other site 563041002995 epsilon subunit interface [polypeptide binding]; other site 563041002996 LBP interface [polypeptide binding]; other site 563041002997 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 563041002998 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 563041002999 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 563041003000 alpha subunit interaction interface [polypeptide binding]; other site 563041003001 Walker A motif; other site 563041003002 ATP binding site [chemical binding]; other site 563041003003 Walker B motif; other site 563041003004 inhibitor binding site; inhibition site 563041003005 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 563041003006 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 563041003007 core domain interface [polypeptide binding]; other site 563041003008 delta subunit interface [polypeptide binding]; other site 563041003009 epsilon subunit interface [polypeptide binding]; other site 563041003010 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 563041003011 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 563041003012 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 563041003013 beta subunit interaction interface [polypeptide binding]; other site 563041003014 Walker A motif; other site 563041003015 ATP binding site [chemical binding]; other site 563041003016 Walker B motif; other site 563041003017 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 563041003018 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13431 563041003019 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 563041003020 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 563041003021 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 563041003022 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 563041003023 ParB-like nuclease domain; Region: ParB; smart00470 563041003024 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 563041003025 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 563041003026 P-loop; other site 563041003027 Magnesium ion binding site [ion binding]; other site 563041003028 biotin--protein ligase; Provisional; Region: PRK08477 563041003029 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 563041003030 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 563041003031 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 563041003032 putative active site [active] 563041003033 substrate binding site [chemical binding]; other site 563041003034 putative cosubstrate binding site; other site 563041003035 catalytic site [active] 563041003036 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 563041003037 substrate binding site [chemical binding]; other site 563041003038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 563041003039 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 563041003040 Uncharacterized conserved protein [Function unknown]; Region: COG1432 563041003041 LabA_like proteins; Region: LabA_like; cd06167 563041003042 putative metal binding site [ion binding]; other site 563041003043 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 563041003044 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 563041003045 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 563041003046 RimM N-terminal domain; Region: RimM; pfam01782 563041003047 PRC-barrel domain; Region: PRC; pfam05239 563041003048 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 563041003049 KH domain; Region: KH_4; pfam13083 563041003050 G-X-X-G motif; other site 563041003051 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 563041003052 signal recognition particle protein; Provisional; Region: PRK10867 563041003053 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 563041003054 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 563041003055 P loop; other site 563041003056 GTP binding site [chemical binding]; other site 563041003057 Signal peptide binding domain; Region: SRP_SPB; pfam02978 563041003058 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 563041003059 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 563041003060 active site 563041003061 HIGH motif; other site 563041003062 nucleotide binding site [chemical binding]; other site 563041003063 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 563041003064 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 563041003065 active site 563041003066 KMSKS motif; other site 563041003067 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 563041003068 anticodon binding site; other site 563041003069 flagellar assembly protein FliW; Provisional; Region: PRK13283 563041003070 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 563041003071 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 563041003072 active site 563041003073 homodimer interface [polypeptide binding]; other site 563041003074 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041003075 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 563041003076 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 563041003077 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 563041003078 Fic/DOC family; Region: Fic; cl00960 563041003079 metal-binding heat shock protein; Provisional; Region: PRK00016 563041003080 flavodoxin FldA; Validated; Region: PRK09267 563041003081 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 563041003082 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 563041003083 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 563041003084 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 563041003085 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 563041003086 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 563041003087 Major Facilitator Superfamily; Region: MFS_1; pfam07690 563041003088 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 563041003089 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 563041003090 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 563041003091 active site 563041003092 dimer interface [polypeptide binding]; other site 563041003093 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 563041003094 dimer interface [polypeptide binding]; other site 563041003095 active site 563041003096 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 563041003097 carbon starvation protein A; Provisional; Region: PRK15015 563041003098 Carbon starvation protein CstA; Region: CstA; pfam02554 563041003099 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 563041003100 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 563041003101 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 563041003102 dimer interface [polypeptide binding]; other site 563041003103 conserved gate region; other site 563041003104 putative PBP binding loops; other site 563041003105 ABC-ATPase subunit interface; other site 563041003106 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 563041003107 dimer interface [polypeptide binding]; other site 563041003108 conserved gate region; other site 563041003109 putative PBP binding loops; other site 563041003110 ABC-ATPase subunit interface; other site 563041003111 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 563041003112 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 563041003113 Walker A/P-loop; other site 563041003114 ATP binding site [chemical binding]; other site 563041003115 Q-loop/lid; other site 563041003116 ABC transporter signature motif; other site 563041003117 Walker B; other site 563041003118 D-loop; other site 563041003119 H-loop/switch region; other site 563041003120 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 563041003121 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 563041003122 substrate binding pocket [chemical binding]; other site 563041003123 membrane-bound complex binding site; other site 563041003124 hinge residues; other site 563041003125 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 563041003126 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 563041003127 putative substrate translocation pore; other site 563041003128 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 563041003129 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041003130 purine-nucleoside phosphorylase, family 1 (deoD); Region: deoD; TIGR00107 563041003131 phosphopentomutase; Provisional; Region: PRK05362 563041003132 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 563041003133 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 563041003134 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 563041003135 Nucleoside recognition; Region: Gate; pfam07670 563041003136 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 563041003137 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 563041003138 Major Facilitator Superfamily; Region: MFS_1; pfam07690 563041003139 putative substrate translocation pore; other site 563041003140 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 563041003141 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 563041003142 Ligand Binding Site [chemical binding]; other site 563041003143 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 563041003144 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 563041003145 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 563041003146 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 563041003147 putative arabinose transporter; Provisional; Region: PRK03545 563041003148 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 563041003149 putative substrate translocation pore; other site 563041003150 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 563041003151 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 563041003152 active site 563041003153 zinc binding site [ion binding]; other site 563041003154 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 563041003155 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 563041003156 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 563041003157 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 563041003158 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 563041003159 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 563041003160 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 563041003161 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 563041003162 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 563041003163 dimer interface [polypeptide binding]; other site 563041003164 motif 1; other site 563041003165 active site 563041003166 motif 2; other site 563041003167 motif 3; other site 563041003168 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 563041003169 anticodon binding site; other site 563041003170 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 563041003171 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 563041003172 putative active site [active] 563041003173 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 563041003174 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 563041003175 active site 563041003176 catalytic tetrad [active] 563041003177 elongation factor G; Reviewed; Region: PRK00007 563041003178 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 563041003179 G1 box; other site 563041003180 putative GEF interaction site [polypeptide binding]; other site 563041003181 GTP/Mg2+ binding site [chemical binding]; other site 563041003182 Switch I region; other site 563041003183 G2 box; other site 563041003184 G3 box; other site 563041003185 Switch II region; other site 563041003186 G4 box; other site 563041003187 G5 box; other site 563041003188 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 563041003189 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 563041003190 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 563041003191 30S ribosomal protein S7; Validated; Region: PRK05302 563041003192 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 563041003193 S17 interaction site [polypeptide binding]; other site 563041003194 S8 interaction site; other site 563041003195 16S rRNA interaction site [nucleotide binding]; other site 563041003196 streptomycin interaction site [chemical binding]; other site 563041003197 23S rRNA interaction site [nucleotide binding]; other site 563041003198 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 563041003199 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 563041003200 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 563041003201 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 563041003202 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 563041003203 RPB11 interaction site [polypeptide binding]; other site 563041003204 RPB12 interaction site [polypeptide binding]; other site 563041003205 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 563041003206 RPB3 interaction site [polypeptide binding]; other site 563041003207 RPB1 interaction site [polypeptide binding]; other site 563041003208 RPB11 interaction site [polypeptide binding]; other site 563041003209 RPB10 interaction site [polypeptide binding]; other site 563041003210 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 563041003211 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 563041003212 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 563041003213 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 563041003214 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 563041003215 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 563041003216 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 563041003217 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 563041003218 DNA binding site [nucleotide binding] 563041003219 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 563041003220 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 563041003221 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 563041003222 core dimer interface [polypeptide binding]; other site 563041003223 peripheral dimer interface [polypeptide binding]; other site 563041003224 L10 interface [polypeptide binding]; other site 563041003225 L11 interface [polypeptide binding]; other site 563041003226 putative EF-Tu interaction site [polypeptide binding]; other site 563041003227 putative EF-G interaction site [polypeptide binding]; other site 563041003228 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 563041003229 23S rRNA interface [nucleotide binding]; other site 563041003230 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 563041003231 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 563041003232 mRNA/rRNA interface [nucleotide binding]; other site 563041003233 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 563041003234 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 563041003235 23S rRNA interface [nucleotide binding]; other site 563041003236 L7/L12 interface [polypeptide binding]; other site 563041003237 putative thiostrepton binding site; other site 563041003238 L25 interface [polypeptide binding]; other site 563041003239 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 563041003240 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 563041003241 putative homodimer interface [polypeptide binding]; other site 563041003242 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 563041003243 heterodimer interface [polypeptide binding]; other site 563041003244 homodimer interface [polypeptide binding]; other site 563041003245 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 563041003246 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 563041003247 elongation factor Tu; Reviewed; Region: PRK00049 563041003248 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 563041003249 G1 box; other site 563041003250 GEF interaction site [polypeptide binding]; other site 563041003251 GTP/Mg2+ binding site [chemical binding]; other site 563041003252 Switch I region; other site 563041003253 G2 box; other site 563041003254 G3 box; other site 563041003255 Switch II region; other site 563041003256 G4 box; other site 563041003257 G5 box; other site 563041003258 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 563041003259 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 563041003260 Antibiotic Binding Site [chemical binding]; other site 563041003261 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 563041003262 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 563041003263 Walker A/P-loop; other site 563041003264 ATP binding site [chemical binding]; other site 563041003265 Q-loop/lid; other site 563041003266 ABC transporter signature motif; other site 563041003267 Walker B; other site 563041003268 D-loop; other site 563041003269 H-loop/switch region; other site 563041003270 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 563041003271 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 563041003272 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 563041003273 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; pfam02086 563041003274 Helicobacter pylori IceA2 protein; Region: IceA2; pfam05862 563041003275 Helicobacter pylori IceA2 protein; Region: IceA2; pfam05862 563041003276 serine O-acetyltransferase; Region: cysE; TIGR01172 563041003277 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 563041003278 trimer interface [polypeptide binding]; other site 563041003279 active site 563041003280 substrate binding site [chemical binding]; other site 563041003281 CoA binding site [chemical binding]; other site 563041003282 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 563041003283 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 563041003284 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 563041003285 oligomer interface [polypeptide binding]; other site 563041003286 RNA binding site [nucleotide binding]; other site 563041003287 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 563041003288 oligomer interface [polypeptide binding]; other site 563041003289 RNA binding site [nucleotide binding]; other site 563041003290 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 563041003291 putative nucleic acid binding region [nucleotide binding]; other site 563041003292 G-X-X-G motif; other site 563041003293 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 563041003294 RNA binding site [nucleotide binding]; other site 563041003295 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG1926 563041003296 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 563041003297 Organic solvent tolerance protein; Region: OstA_C; pfam04453 563041003298 Predicted membrane protein/domain [Function unknown]; Region: COG1714 563041003299 phosphoribosylamine--glycine ligase; Region: purD; TIGR00877 563041003300 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 563041003301 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 563041003302 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 563041003303 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 563041003304 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 563041003305 Walker A/P-loop; other site 563041003306 ATP binding site [chemical binding]; other site 563041003307 Q-loop/lid; other site 563041003308 ABC transporter signature motif; other site 563041003309 Walker B; other site 563041003310 D-loop; other site 563041003311 H-loop/switch region; other site 563041003312 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 563041003313 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 563041003314 catalytic residue [active] 563041003315 putative FPP diphosphate binding site; other site 563041003316 putative FPP binding hydrophobic cleft; other site 563041003317 dimer interface [polypeptide binding]; other site 563041003318 putative IPP diphosphate binding site; other site 563041003319 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 563041003320 FAD binding domain; Region: FAD_binding_4; pfam01565 563041003321 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 563041003322 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 563041003323 active site residue [active] 563041003324 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 563041003325 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 563041003326 active site 563041003327 camphor resistance protein CrcB; Provisional; Region: PRK14204 563041003328 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 563041003329 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 563041003330 FeS/SAM binding site; other site 563041003331 HemN C-terminal domain; Region: HemN_C; pfam06969 563041003332 Cytochrome c553 [Energy production and conversion]; Region: COG2863 563041003333 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 563041003334 putative active site [active] 563041003335 Ap4A binding site [chemical binding]; other site 563041003336 nudix motif; other site 563041003337 putative metal binding site [ion binding]; other site 563041003338 aspartate kinase; Reviewed; Region: PRK06635 563041003339 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 563041003340 putative nucleotide binding site [chemical binding]; other site 563041003341 putative catalytic residues [active] 563041003342 putative Mg ion binding site [ion binding]; other site 563041003343 putative aspartate binding site [chemical binding]; other site 563041003344 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 563041003345 putative allosteric regulatory site; other site 563041003346 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 563041003347 putative allosteric regulatory residue; other site 563041003348 DNA replication regulator; Region: HobA; pfam12163 563041003349 DNA polymerase III subunit delta'; Validated; Region: PRK08485 563041003350 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 563041003351 dihydropteroate synthase; Region: DHPS; TIGR01496 563041003352 substrate binding pocket [chemical binding]; other site 563041003353 dimer interface [polypeptide binding]; other site 563041003354 inhibitor binding site; inhibition site 563041003355 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 563041003356 EamA-like transporter family; Region: EamA; pfam00892 563041003357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2952 563041003358 Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarA; COG0505 563041003359 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 563041003360 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 563041003361 catalytic site [active] 563041003362 subunit interface [polypeptide binding]; other site 563041003363 formamidase; Provisional; Region: amiF; PRK13287 563041003364 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 563041003365 multimer interface [polypeptide binding]; other site 563041003366 active site 563041003367 catalytic triad [active] 563041003368 dimer interface [polypeptide binding]; other site 563041003369 Maf-like protein; Reviewed; Region: PRK04056 563041003370 putative active site [active] 563041003371 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 563041003372 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 563041003373 active site 563041003374 motif 2; other site 563041003375 motif 3; other site 563041003376 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 563041003377 DHHA1 domain; Region: DHHA1; pfam02272 563041003378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 563041003379 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041003380 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 563041003381 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 563041003382 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 563041003383 dimer interface [polypeptide binding]; other site 563041003384 ssDNA binding site [nucleotide binding]; other site 563041003385 tetramer (dimer of dimers) interface [polypeptide binding]; other site 563041003386 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 563041003387 DNA polymerase III subunit delta; Validated; Region: PRK08487 563041003388 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 563041003389 Exoribonuclease R [Transcription]; Region: VacB; COG0557 563041003390 RNB domain; Region: RNB; pfam00773 563041003391 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 563041003392 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 563041003393 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 563041003394 shikimate binding site; other site 563041003395 NAD(P) binding site [chemical binding]; other site 563041003396 Bacterial SH3 domain; Region: SH3_3; pfam08239 563041003397 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 563041003398 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 563041003399 dimer interface [polypeptide binding]; other site 563041003400 conserved gate region; other site 563041003401 putative PBP binding loops; other site 563041003402 ABC-ATPase subunit interface; other site 563041003403 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 563041003404 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 563041003405 active site 563041003406 HIGH motif; other site 563041003407 dimer interface [polypeptide binding]; other site 563041003408 KMSKS motif; other site 563041003409 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 563041003410 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 563041003411 S-adenosylmethionine binding site [chemical binding]; other site 563041003412 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 563041003413 ribosome recycling factor; Reviewed; Region: frr; PRK00083 563041003414 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 563041003415 hinge region; other site 563041003416 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 563041003417 active site 563041003418 RDD family; Region: RDD; pfam06271 563041003419 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 563041003420 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 563041003421 NAD+ binding site [chemical binding]; other site 563041003422 substrate binding site [chemical binding]; other site 563041003423 Zn binding site [ion binding]; other site 563041003424 NADH dehydrogenase subunit A; Validated; Region: PRK08489 563041003425 NADH dehydrogenase subunit B; Validated; Region: PRK06411 563041003426 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 563041003427 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 563041003428 NADH dehydrogenase subunit D; Validated; Region: PRK06075 563041003429 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 563041003430 NADH dehydrogenase subunit G; Validated; Region: PRK08493 563041003431 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 563041003432 catalytic loop [active] 563041003433 iron binding site [ion binding]; other site 563041003434 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 563041003435 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 563041003436 molybdopterin cofactor binding site; other site 563041003437 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 563041003438 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 563041003439 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 563041003440 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 563041003441 4Fe-4S binding domain; Region: Fer4; cl02805 563041003442 4Fe-4S binding domain; Region: Fer4; pfam00037 563041003443 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 563041003444 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 563041003445 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 563041003446 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 563041003447 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 563041003448 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 563041003449 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 563041003450 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 563041003451 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 563041003452 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 563041003453 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 563041003454 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 563041003455 active site 563041003456 substrate binding site [chemical binding]; other site 563041003457 metal binding site [ion binding]; metal-binding site 563041003458 Thiamine pyrophosphokinase; Region: TPK; cl08415 563041003459 thiamine binding site [chemical binding]; other site 563041003460 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 563041003461 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 563041003462 substrate binding site [chemical binding]; other site 563041003463 active site 563041003464 catalytic residues [active] 563041003465 heterodimer interface [polypeptide binding]; other site 563041003466 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 563041003467 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 563041003468 pyridoxal 5'-phosphate binding site [chemical binding]; other site 563041003469 catalytic residue [active] 563041003470 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 563041003471 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 563041003472 active site 563041003473 ribulose/triose binding site [chemical binding]; other site 563041003474 phosphate binding site [ion binding]; other site 563041003475 substrate (anthranilate) binding pocket [chemical binding]; other site 563041003476 product (indole) binding pocket [chemical binding]; other site 563041003477 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 563041003478 active site 563041003479 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 563041003480 anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245 563041003481 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 563041003482 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 563041003483 Glutamine amidotransferase class-I; Region: GATase; pfam00117 563041003484 glutamine binding [chemical binding]; other site 563041003485 catalytic triad [active] 563041003486 anthranilate synthase component I; Provisional; Region: PRK13564 563041003487 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 563041003488 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 563041003489 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 563041003490 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 563041003491 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 563041003492 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 563041003493 Restriction endonuclease EcoRV; Region: Endonuc-EcoRV; pfam09233 563041003494 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 563041003495 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 563041003496 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 563041003497 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 563041003498 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 563041003499 putative active site [active] 563041003500 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 563041003501 active site 563041003502 motif I; other site 563041003503 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 563041003504 motif II; other site 563041003505 Uncharacterized conserved protein [Function unknown]; Region: COG2353 563041003506 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 563041003507 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 563041003508 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 563041003509 Thiamine pyrophosphokinase; Region: TPK; cd07995 563041003510 active site 563041003511 dimerization interface [polypeptide binding]; other site 563041003512 thiamine binding site [chemical binding]; other site 563041003513 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 563041003514 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 563041003515 alphaNTD homodimer interface [polypeptide binding]; other site 563041003516 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 563041003517 alphaNTD - beta interaction site [polypeptide binding]; other site 563041003518 alphaNTD - beta' interaction site [polypeptide binding]; other site 563041003519 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 563041003520 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 563041003521 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 563041003522 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 563041003523 RNA binding surface [nucleotide binding]; other site 563041003524 30S ribosomal protein S11; Validated; Region: PRK05309 563041003525 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 563041003526 30S ribosomal protein S13; Region: bact_S13; TIGR03631 563041003527 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 563041003528 rRNA binding site [nucleotide binding]; other site 563041003529 predicted 30S ribosome binding site; other site 563041003530 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 563041003531 active site 563041003532 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 563041003533 SecY translocase; Region: SecY; pfam00344 563041003534 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 563041003535 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 563041003536 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 563041003537 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 563041003538 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 563041003539 23S rRNA interface [nucleotide binding]; other site 563041003540 5S rRNA interface [nucleotide binding]; other site 563041003541 L27 interface [polypeptide binding]; other site 563041003542 L5 interface [polypeptide binding]; other site 563041003543 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 563041003544 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 563041003545 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 563041003546 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 563041003547 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 563041003548 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 563041003549 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 563041003550 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 563041003551 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 563041003552 RNA binding site [nucleotide binding]; other site 563041003553 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 563041003554 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 563041003555 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 563041003556 L23 interface [polypeptide binding]; other site 563041003557 trigger factor interaction site; other site 563041003558 23S rRNA interface [nucleotide binding]; other site 563041003559 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 563041003560 23S rRNA interface [nucleotide binding]; other site 563041003561 5S rRNA interface [nucleotide binding]; other site 563041003562 putative antibiotic binding site [chemical binding]; other site 563041003563 L25 interface [polypeptide binding]; other site 563041003564 L27 interface [polypeptide binding]; other site 563041003565 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 563041003566 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 563041003567 G-X-X-G motif; other site 563041003568 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 563041003569 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 563041003570 putative translocon binding site; other site 563041003571 protein-rRNA interface [nucleotide binding]; other site 563041003572 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 563041003573 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 563041003574 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 563041003575 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 563041003576 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 563041003577 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 563041003578 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 563041003579 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 563041003580 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 563041003581 AAA domain; Region: AAA_14; pfam13173 563041003582 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 563041003583 RNA/DNA hybrid binding site [nucleotide binding]; other site 563041003584 active site 563041003585 fumarate hydratase; Reviewed; Region: fumC; PRK00485 563041003586 Class II fumarases; Region: Fumarase_classII; cd01362 563041003587 active site 563041003588 tetramer interface [polypeptide binding]; other site 563041003589 YtkA-like; Region: YtkA; pfam13115 563041003590 Outer membrane efflux protein; Region: OEP; pfam02321 563041003591 HlyD family secretion protein; Region: HlyD_2; pfam12700 563041003592 HlyD family secretion protein; Region: HlyD_3; pfam13437 563041003593 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 563041003594 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 563041003595 AzlC protein; Region: AzlC; cl00570 563041003596 chaperone protein DnaJ; Provisional; Region: PRK14288 563041003597 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 563041003598 HSP70 interaction site [polypeptide binding]; other site 563041003599 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 563041003600 substrate binding site [polypeptide binding]; other site 563041003601 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 563041003602 Zn binding sites [ion binding]; other site 563041003603 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 563041003604 dimer interface [polypeptide binding]; other site 563041003605 Uncharacterized conserved protein [Function unknown]; Region: COG1432 563041003606 LabA_like proteins; Region: LabA_like; cd06167 563041003607 putative metal binding site [ion binding]; other site 563041003608 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 563041003609 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 563041003610 Ligand Binding Site [chemical binding]; other site 563041003611 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 563041003612 HSP70 interaction site [polypeptide binding]; other site 563041003613 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 563041003614 active site 563041003615 nickel responsive regulator; Provisional; Region: PRK00630 563041003616 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 563041003617 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 563041003618 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 563041003619 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 563041003620 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 563041003621 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 563041003622 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 563041003623 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041003624 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 563041003625 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 563041003626 Mg2+ transporter Helicobacter pylori CorA-like subgroup; Region: HpCorA-like; cd12836 563041003627 Cl binding site [ion binding]; other site 563041003628 oligomer interface [polypeptide binding]; other site 563041003629 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 563041003630 Phosphoglycerate kinase; Region: PGK; pfam00162 563041003631 substrate binding site [chemical binding]; other site 563041003632 hinge regions; other site 563041003633 ADP binding site [chemical binding]; other site 563041003634 catalytic site [active] 563041003635 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 563041003636 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 563041003637 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 563041003638 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 563041003639 ligand binding site [chemical binding]; other site 563041003640 active site 563041003641 UGI interface [polypeptide binding]; other site 563041003642 catalytic site [active] 563041003643 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 563041003644 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 563041003645 putative acyl-acceptor binding pocket; other site 563041003646 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 563041003647 C-terminal peptidase (prc); Region: prc; TIGR00225 563041003648 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 563041003649 protein binding site [polypeptide binding]; other site 563041003650 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 563041003651 Catalytic dyad [active] 563041003652 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 563041003653 DNA methylase; Region: N6_N4_Mtase; pfam01555 563041003654 Predicted helicase [General function prediction only]; Region: COG4889 563041003655 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 563041003656 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 563041003657 dimerization interface [polypeptide binding]; other site 563041003658 active site 563041003659 Quinolinate synthetase A protein; Region: NadA; cl00420 563041003660 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 563041003661 prenyltransferase; Reviewed; Region: ubiA; PRK12874 563041003662 UbiA prenyltransferase family; Region: UbiA; pfam01040 563041003663 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 563041003664 Competence protein; Region: Competence; pfam03772 563041003665 replicative DNA helicase; Provisional; Region: PRK08506 563041003666 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 563041003667 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 563041003668 Walker A motif; other site 563041003669 ATP binding site [chemical binding]; other site 563041003670 Walker B motif; other site 563041003671 DNA binding loops [nucleotide binding] 563041003672 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 563041003673 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 563041003674 putative substrate binding site [chemical binding]; other site 563041003675 putative ATP binding site [chemical binding]; other site 563041003676 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 563041003677 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 563041003678 dimer interface [polypeptide binding]; other site 563041003679 phosphorylation site [posttranslational modification] 563041003680 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 563041003681 ATP binding site [chemical binding]; other site 563041003682 Mg2+ binding site [ion binding]; other site 563041003683 G-X-G motif; other site 563041003684 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 563041003685 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 563041003686 active site 563041003687 phosphorylation site [posttranslational modification] 563041003688 intermolecular recognition site; other site 563041003689 dimerization interface [polypeptide binding]; other site 563041003690 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 563041003691 DNA binding site [nucleotide binding] 563041003692 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 563041003693 DNA methylase; Region: N6_N4_Mtase; pfam01555 563041003694 DNA methylase; Region: N6_N4_Mtase; pfam01555 563041003695 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 563041003696 DEAD-like helicases superfamily; Region: DEXDc; smart00487 563041003697 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 563041003698 ATP binding site [chemical binding]; other site 563041003699 putative Mg++ binding site [ion binding]; other site 563041003700 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 563041003701 rod shape-determining protein MreC; Region: MreC; pfam04085 563041003702 rod shape-determining protein MreB; Provisional; Region: PRK13927 563041003703 MreB and similar proteins; Region: MreB_like; cd10225 563041003704 nucleotide binding site [chemical binding]; other site 563041003705 Mg binding site [ion binding]; other site 563041003706 putative protofilament interaction site [polypeptide binding]; other site 563041003707 RodZ interaction site [polypeptide binding]; other site 563041003708 endopeptidase Clp ATP-binding regulatory subunit (clpX); Region: clpX; TIGR00382 563041003709 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 563041003710 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 563041003711 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 563041003712 Walker A motif; other site 563041003713 ATP binding site [chemical binding]; other site 563041003714 Walker B motif; other site 563041003715 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 563041003716 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 563041003717 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 563041003718 active site 563041003719 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 563041003720 flagellar assembly protein FliW; Provisional; Region: PRK13282 563041003721 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 563041003722 ATP-dependent protease La; Region: lon; TIGR00763 563041003723 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 563041003724 Walker A motif; other site 563041003725 ATP binding site [chemical binding]; other site 563041003726 Walker B motif; other site 563041003727 arginine finger; other site 563041003728 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 563041003729 prephenate dehydrogenase; Validated; Region: PRK08507 563041003730 Prephenate dehydrogenase; Region: PDH; pfam02153 563041003731 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 563041003732 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 563041003733 active site 563041003734 substrate binding site [chemical binding]; other site 563041003735 Mg2+ binding site [ion binding]; other site 563041003736 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 563041003737 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 563041003738 DNA methylase; Region: N6_N4_Mtase; pfam01555 563041003739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 563041003740 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 563041003741 ATP binding site [chemical binding]; other site 563041003742 putative Mg++ binding site [ion binding]; other site 563041003743 biotin synthase; Provisional; Region: PRK08508 563041003744 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 563041003745 FeS/SAM binding site; other site 563041003746 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 563041003747 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 563041003748 Uncharacterized conserved protein [Function unknown]; Region: COG1479 563041003749 Protein of unknown function DUF262; Region: DUF262; pfam03235 563041003750 Protein of unknown function DUF262; Region: DUF262; pfam03235 563041003751 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 563041003752 7-cyano-7-deazaguanine reductase; Region: QueF-II; TIGR03139 563041003753 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 563041003754 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 563041003755 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 563041003756 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 563041003757 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 563041003758 Ligand binding site; other site 563041003759 metal-binding site 563041003760 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 563041003761 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 563041003762 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 563041003763 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 563041003764 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 563041003765 Walker A motif/ATP binding site; other site 563041003766 Walker B motif; other site 563041003767 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 563041003768 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 563041003769 ATP binding site [chemical binding]; other site 563041003770 Walker A motif; other site 563041003771 hexamer interface [polypeptide binding]; other site 563041003772 Walker B motif; other site 563041003773 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 563041003774 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 563041003775 active site 563041003776 HIGH motif; other site 563041003777 nucleotide binding site [chemical binding]; other site 563041003778 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 563041003779 active site 563041003780 KMSKS motif; other site 563041003781 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 563041003782 tRNA binding surface [nucleotide binding]; other site 563041003783 anticodon binding site; other site 563041003784 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 563041003785 RNA binding surface [nucleotide binding]; other site 563041003786 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 563041003787 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 563041003788 FeS/SAM binding site; other site 563041003789 KpsF/GutQ family protein; Region: kpsF; TIGR00393 563041003790 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 563041003791 putative active site [active] 563041003792 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 563041003793 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 563041003794 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 563041003795 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 563041003796 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 563041003797 dimethyladenosine transferase; Region: ksgA; TIGR00755 563041003798 S-adenosylmethionine binding site [chemical binding]; other site 563041003799 formyltetrahydrofolate deformylase; Region: PurU; TIGR00655 563041003800 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 563041003801 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 563041003802 putative active site [active] 563041003803 putative substrate binding site [chemical binding]; other site 563041003804 putative cosubstrate binding site; other site 563041003805 catalytic site [active] 563041003806 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 563041003807 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 563041003808 tandem repeat interface [polypeptide binding]; other site 563041003809 oligomer interface [polypeptide binding]; other site 563041003810 active site residues [active] 563041003811 TIR domain; Region: TIR_2; pfam13676 563041003812 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 563041003813 active site 563041003814 carbon storage regulator; Provisional; Region: PRK00568 563041003815 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 563041003816 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 563041003817 SmpB-tmRNA interface; other site 563041003818 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 563041003819 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 563041003820 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 563041003821 hypothetical protein; Provisional; Region: PRK14374 563041003822 membrane protein insertase; Provisional; Region: PRK01318 563041003823 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 563041003824 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 563041003825 tRNA modification GTPase TrmE; Region: mnmE_trmE_thdF; TIGR00450 563041003826 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 563041003827 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 563041003828 GTP/Mg2+ binding site [chemical binding]; other site 563041003829 G4 box; other site 563041003830 G5 box; other site 563041003831 trmE is a tRNA modification GTPase; Region: trmE; cd04164 563041003832 G1 box; other site 563041003833 G1 box; other site 563041003834 GTP/Mg2+ binding site [chemical binding]; other site 563041003835 Switch I region; other site 563041003836 Switch I region; other site 563041003837 G2 box; other site 563041003838 G2 box; other site 563041003839 Switch II region; other site 563041003840 G3 box; other site 563041003841 G3 box; other site 563041003842 Switch II region; other site 563041003843 G4 box; other site 563041003844 G5 box; other site 563041003845 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 563041003846 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041003847 LPP20 lipoprotein; Region: LPP20; pfam02169 563041003848 LPP20 lipoprotein precursor; Region: LPP20; pfam02169 563041003849 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 563041003850 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 563041003851 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 563041003852 catalytic residues [active] 563041003853 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 563041003854 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 563041003855 RNA binding surface [nucleotide binding]; other site 563041003856 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 563041003857 active site 563041003858 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 563041003859 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 563041003860 active site 563041003861 PHP Thumb interface [polypeptide binding]; other site 563041003862 metal binding site [ion binding]; metal-binding site 563041003863 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 563041003864 generic binding surface I; other site 563041003865 generic binding surface II; other site 563041003866 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 563041003867 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 563041003868 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 563041003869 mce related protein; Region: MCE; pfam02470 563041003870 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 563041003871 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 563041003872 Walker A/P-loop; other site 563041003873 ATP binding site [chemical binding]; other site 563041003874 Q-loop/lid; other site 563041003875 ABC transporter signature motif; other site 563041003876 Walker B; other site 563041003877 D-loop; other site 563041003878 H-loop/switch region; other site 563041003879 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 563041003880 conserved hypothetical integral membrane protein; Region: TIGR00056 563041003881 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041003882 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 563041003883 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 563041003884 homodimer interface [polypeptide binding]; other site 563041003885 substrate-cofactor binding pocket; other site 563041003886 catalytic residue [active] 563041003887 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041003888 DNA polymerase I; Region: pola; TIGR00593 563041003889 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 563041003890 active site 563041003891 metal binding site 1 [ion binding]; metal-binding site 563041003892 putative 5' ssDNA interaction site; other site 563041003893 metal binding site 3; metal-binding site 563041003894 metal binding site 2 [ion binding]; metal-binding site 563041003895 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 563041003896 putative DNA binding site [nucleotide binding]; other site 563041003897 putative metal binding site [ion binding]; other site 563041003898 3'-5' exonuclease; Region: 35EXOc; smart00474 563041003899 active site 563041003900 substrate binding site [chemical binding]; other site 563041003901 catalytic site [active] 563041003902 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 563041003903 active site 563041003904 DNA binding site [nucleotide binding] 563041003905 catalytic site [active] 563041003906 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 563041003907 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 563041003908 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 563041003909 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 563041003910 thymidylate kinase; Validated; Region: tmk; PRK00698 563041003911 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 563041003912 TMP-binding site; other site 563041003913 ATP-binding site [chemical binding]; other site 563041003914 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 563041003915 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 563041003916 active site 563041003917 (T/H)XGH motif; other site 563041003918 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 563041003919 Flavoprotein; Region: Flavoprotein; pfam02441 563041003920 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 563041003921 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 563041003922 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 563041003923 Part of AAA domain; Region: AAA_19; pfam13245 563041003924 Family description; Region: UvrD_C_2; pfam13538 563041003925 TPR repeat; Region: TPR_11; pfam13414 563041003926 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 563041003927 TPR motif; other site 563041003928 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 563041003929 binding surface 563041003930 TPR motif; other site 563041003931 seryl-tRNA synthetase; Provisional; Region: PRK05431 563041003932 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 563041003933 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 563041003934 dimer interface [polypeptide binding]; other site 563041003935 active site 563041003936 motif 1; other site 563041003937 motif 2; other site 563041003938 motif 3; other site 563041003939 Predicted amidohydrolase [General function prediction only]; Region: COG0388 563041003940 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 563041003941 active site 563041003942 catalytic triad [active] 563041003943 dimer interface [polypeptide binding]; other site 563041003944 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14065 563041003945 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 563041003946 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 563041003947 S-adenosylmethionine binding site [chemical binding]; other site 563041003948 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 563041003949 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 563041003950 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 563041003951 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 563041003952 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 563041003953 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 563041003954 HlyD family secretion protein; Region: HlyD_3; pfam13437 563041003955 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 563041003956 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 563041003957 Domain of unknown function DUF21; Region: DUF21; pfam01595 563041003958 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 563041003959 Transporter associated domain; Region: CorC_HlyC; smart01091 563041003960 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 563041003961 Phosphate transporter family; Region: PHO4; pfam01384 563041003962 NifU-like domain; Region: NifU; pfam01106 563041003963 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 563041003964 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 563041003965 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 563041003966 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 563041003967 putative active site [active] 563041003968 transaldolase; Provisional; Region: PRK03903 563041003969 catalytic residue [active] 563041003970 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 563041003971 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 563041003972 5S rRNA interface [nucleotide binding]; other site 563041003973 CTC domain interface [polypeptide binding]; other site 563041003974 L16 interface [polypeptide binding]; other site 563041003975 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 563041003976 putative active site [active] 563041003977 catalytic residue [active] 563041003978 Predicted permeases [General function prediction only]; Region: COG0795 563041003979 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 563041003980 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 563041003981 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 563041003982 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 563041003983 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041003984 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 563041003985 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 563041003986 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 563041003987 catalytic motif [active] 563041003988 Zn binding site [ion binding]; other site 563041003989 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 563041003990 RibD C-terminal domain; Region: RibD_C; cl17279 563041003991 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 563041003992 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 563041003993 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 563041003994 4Fe-4S binding domain; Region: Fer4_5; pfam12801 563041003995 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 563041003996 acyl-phosphate glycerol 3-phosphate acyltransferase; Region: TIGR00023 563041003997 FolB domain; Region: folB_dom; TIGR00526 563041003998 active site 563041003999 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 563041004000 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 563041004001 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 563041004002 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 563041004003 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 563041004004 NusA N-terminal domain; Region: NusA_N; pfam08529 563041004005 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 563041004006 RNA binding site [nucleotide binding]; other site 563041004007 homodimer interface [polypeptide binding]; other site 563041004008 NusA-like KH domain; Region: KH_5; pfam13184 563041004009 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 563041004010 G-X-X-G motif; other site 563041004011 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 563041004012 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 563041004013 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 563041004014 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 563041004015 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 563041004016 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 563041004017 DNA methylase; Region: N6_N4_Mtase; cl17433 563041004018 DNA methylase; Region: N6_N4_Mtase; pfam01555 563041004019 DNA methylase; Region: N6_N4_Mtase; pfam01555 563041004020 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 563041004021 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 563041004022 ssDNA binding site; other site 563041004023 generic binding surface II; other site 563041004024 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 563041004025 ATP binding site [chemical binding]; other site 563041004026 putative Mg++ binding site [ion binding]; other site 563041004027 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 563041004028 nucleotide binding region [chemical binding]; other site 563041004029 ATP-binding site [chemical binding]; other site 563041004030 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041004031 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 563041004032 active site 563041004033 putative catalytic site [active] 563041004034 DNA binding site [nucleotide binding] 563041004035 putative phosphate binding site [ion binding]; other site 563041004036 metal binding site A [ion binding]; metal-binding site 563041004037 AP binding site [nucleotide binding]; other site 563041004038 metal binding site B [ion binding]; metal-binding site 563041004039 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 563041004040 DnaA N-terminal domain; Region: DnaA_N; pfam11638 563041004041 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 563041004042 Walker A motif; other site 563041004043 ATP binding site [chemical binding]; other site 563041004044 Walker B motif; other site 563041004045 arginine finger; other site 563041004046 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 563041004047 DnaA box-binding interface [nucleotide binding]; other site 563041004048 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 563041004049 Protein of unknown function (DUF2443); Region: DUF2443; pfam10398 563041004050 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 563041004051 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 563041004052 glutaminase active site [active] 563041004053 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 563041004054 dimer interface [polypeptide binding]; other site 563041004055 active site 563041004056 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 563041004057 dimer interface [polypeptide binding]; other site 563041004058 active site 563041004059 Predicted alternative thymidylate synthase [Nucleotide transport and metabolism]; Region: THY1; COG1351 563041004060 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 563041004061 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 563041004062 HsdM N-terminal domain; Region: HsdM_N; pfam12161 563041004063 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 563041004064 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 563041004065 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 563041004066 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 563041004067 ATP binding site [chemical binding]; other site 563041004068 putative Mg++ binding site [ion binding]; other site 563041004069 Protein of unknown function DUF45; Region: DUF45; pfam01863 563041004070 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 563041004071 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 563041004072 N-terminal plug; other site 563041004073 ligand-binding site [chemical binding]; other site 563041004074 Arginase family; Region: Arginase; cd09989 563041004075 active site 563041004076 Mn binding site [ion binding]; other site 563041004077 oligomer interface [polypeptide binding]; other site 563041004078 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 563041004079 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 563041004080 hexamer interface [polypeptide binding]; other site 563041004081 ligand binding site [chemical binding]; other site 563041004082 putative active site [active] 563041004083 NAD(P) binding site [chemical binding]; other site 563041004084 Protein of unknown function DUF262; Region: DUF262; pfam03235 563041004085 Uncharacterized conserved protein [Function unknown]; Region: COG1479 563041004086 Protein of unknown function DUF262; Region: DUF262; pfam03235 563041004087 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 563041004088 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 563041004089 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 563041004090 ATP-NAD kinase; Region: NAD_kinase; pfam01513 563041004091 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 563041004092 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 563041004093 Walker A/P-loop; other site 563041004094 ATP binding site [chemical binding]; other site 563041004095 Q-loop/lid; other site 563041004096 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 563041004097 ABC transporter signature motif; other site 563041004098 Walker B; other site 563041004099 D-loop; other site 563041004100 H-loop/switch region; other site 563041004101 Domain of unknown function (DUF814); Region: DUF814; pfam05670 563041004102 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 563041004103 binding surface 563041004104 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 563041004105 TPR motif; other site 563041004106 Sel1-like repeats; Region: SEL1; smart00671 563041004107 Sel1-like repeats; Region: SEL1; smart00671 563041004108 Sel1-like repeats; Region: SEL1; smart00671 563041004109 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 563041004110 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 563041004111 active site 563041004112 catalytic site [active] 563041004113 substrate binding site [chemical binding]; other site 563041004114 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 563041004115 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 563041004116 substrate binding site [chemical binding]; other site 563041004117 hexamer interface [polypeptide binding]; other site 563041004118 metal binding site [ion binding]; metal-binding site 563041004119 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 563041004120 active site 563041004121 Methyltransferase domain; Region: Methyltransf_26; pfam13659 563041004122 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 563041004123 Cytochrome c; Region: Cytochrom_C; pfam00034 563041004124 Cytochrome c; Region: Cytochrom_C; cl11414 563041004125 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 563041004126 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 563041004127 intrachain domain interface; other site 563041004128 interchain domain interface [polypeptide binding]; other site 563041004129 heme bH binding site [chemical binding]; other site 563041004130 Qi binding site; other site 563041004131 heme bL binding site [chemical binding]; other site 563041004132 Qo binding site; other site 563041004133 interchain domain interface [polypeptide binding]; other site 563041004134 intrachain domain interface; other site 563041004135 Qi binding site; other site 563041004136 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 563041004137 Qo binding site; other site 563041004138 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 563041004139 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 563041004140 [2Fe-2S] cluster binding site [ion binding]; other site 563041004141 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 563041004142 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 563041004143 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 563041004144 ATP binding site [chemical binding]; other site 563041004145 putative Mg++ binding site [ion binding]; other site 563041004146 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 563041004147 nucleotide binding region [chemical binding]; other site 563041004148 ATP-binding site [chemical binding]; other site 563041004149 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 563041004150 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 563041004151 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 563041004152 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 563041004153 Peptidase family M23; Region: Peptidase_M23; pfam01551 563041004154 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 563041004155 Peptidase family M23; Region: Peptidase_M23; pfam01551 563041004156 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 563041004157 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 563041004158 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 563041004159 Lipopolysaccharide-assembly; Region: LptE; pfam04390 563041004160 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 563041004161 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 563041004162 HIGH motif; other site 563041004163 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 563041004164 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 563041004165 active site 563041004166 KMSKS motif; other site 563041004167 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 563041004168 tRNA binding surface [nucleotide binding]; other site 563041004169 anticodon binding site; other site 563041004170 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 563041004171 Protein export membrane protein; Region: SecD_SecF; pfam02355 563041004172 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 563041004173 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 563041004174 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 563041004175 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14856 563041004176 putative recombination protein RecB; Provisional; Region: PRK13909 563041004177 Family description; Region: UvrD_C_2; pfam13538 563041004178 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 563041004179 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 563041004180 rRNA interaction site [nucleotide binding]; other site 563041004181 S8 interaction site; other site 563041004182 putative laminin-1 binding site; other site 563041004183 elongation factor Ts; Provisional; Region: tsf; PRK09377 563041004184 UBA/TS-N domain; Region: UBA; pfam00627 563041004185 Elongation factor TS; Region: EF_TS; pfam00889 563041004186 Elongation factor TS; Region: EF_TS; pfam00889 563041004187 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 563041004188 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 563041004189 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 563041004190 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 563041004191 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 563041004192 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 563041004193 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 563041004194 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 563041004195 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 563041004196 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 563041004197 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 563041004198 intersubunit interface [polypeptide binding]; other site 563041004199 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 563041004200 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 563041004201 dimer interface [polypeptide binding]; other site 563041004202 decamer (pentamer of dimers) interface [polypeptide binding]; other site 563041004203 catalytic triad [active] 563041004204 peroxidatic and resolving cysteines [active] 563041004205 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 563041004206 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 563041004207 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 563041004208 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 563041004209 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 563041004210 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 563041004211 G1 box; other site 563041004212 GTP/Mg2+ binding site [chemical binding]; other site 563041004213 Switch I region; other site 563041004214 G2 box; other site 563041004215 G3 box; other site 563041004216 Switch II region; other site 563041004217 G4 box; other site 563041004218 G5 box; other site 563041004219 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 563041004220 OstA-like protein; Region: OstA; pfam03968 563041004221 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 563041004222 motif II; other site 563041004223 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 563041004224 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 563041004225 Sporulation related domain; Region: SPOR; pfam05036 563041004226 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 563041004227 N-acetyl-D-glucosamine binding site [chemical binding]; other site 563041004228 catalytic residue [active] 563041004229 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 563041004230 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 563041004231 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 563041004232 active site 563041004233 riboflavin synthase, alpha subunit; Region: ribE; TIGR00187 563041004234 Lumazine binding domain; Region: Lum_binding; pfam00677 563041004235 Lumazine binding domain; Region: Lum_binding; pfam00677 563041004236 flhB C-terminus-related protein; Region: flhB_rel; TIGR00789 563041004237 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 563041004238 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 563041004239 Walker A/P-loop; other site 563041004240 ATP binding site [chemical binding]; other site 563041004241 Q-loop/lid; other site 563041004242 ABC transporter signature motif; other site 563041004243 Walker B; other site 563041004244 D-loop; other site 563041004245 H-loop/switch region; other site 563041004246 NIL domain; Region: NIL; pfam09383 563041004247 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 563041004248 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 563041004249 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 563041004250 active site 563041004251 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 563041004252 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 563041004253 active site 563041004254 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 563041004255 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 563041004256 Mg++ binding site [ion binding]; other site 563041004257 putative catalytic motif [active] 563041004258 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 563041004259 active site 563041004260 hydrophilic channel; other site 563041004261 dimerization interface [polypeptide binding]; other site 563041004262 catalytic residues [active] 563041004263 active site lid [active] 563041004264 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 563041004265 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 563041004266 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 563041004267 metallohydrolase, glycoprotease/Kae1 family; Region: gcp_kae1; TIGR00329 563041004268 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 563041004269 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 563041004270 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 563041004271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 563041004272 hypothetical protein; Provisional; Region: PRK10236 563041004273 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 563041004274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 563041004275 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 563041004276 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 563041004277 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 563041004278 Initiator Replication protein; Region: Rep_3; pfam01051 563041004279 Fic family protein [Function unknown]; Region: COG3177 563041004280 Fic/DOC family; Region: Fic; pfam02661 563041004281 Fic family protein [Function unknown]; Region: COG3177 563041004282 Fic/DOC family; Region: Fic; pfam02661 563041004283 Major Facilitator Superfamily; Region: MFS_1; pfam07690 563041004284 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 563041004285 ATP binding site [chemical binding]; other site 563041004286 substrate interface [chemical binding]; other site 563041004287 phosphodiesterase; Provisional; Region: PRK12704 563041004288 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 563041004289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396