-- dump date 20140619_113719 -- class Genbank::misc_feature -- table misc_feature_note -- id note 570508000001 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 570508000002 putative RNA binding site [nucleotide binding]; other site 570508000003 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 570508000004 homopentamer interface [polypeptide binding]; other site 570508000005 active site 570508000006 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 570508000007 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 570508000008 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; cl00391 570508000009 active site clefts [active] 570508000010 zinc binding site [ion binding]; other site 570508000011 dimer interface [polypeptide binding]; other site 570508000012 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 570508000013 active site 570508000014 dimer interface [polypeptide binding]; other site 570508000015 pantoate--beta-alanine ligase; Region: panC; TIGR00018 570508000016 Pantoate-beta-alanine ligase; Region: PanC; cd00560 570508000017 active site 570508000018 ATP-binding site [chemical binding]; other site 570508000019 pantoate-binding site; other site 570508000020 HXXH motif; other site 570508000021 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508000022 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 570508000023 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 570508000024 ring oligomerisation interface [polypeptide binding]; other site 570508000025 ATP/Mg binding site [chemical binding]; other site 570508000026 stacking interactions; other site 570508000027 hinge regions; other site 570508000028 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 570508000029 oligomerisation interface [polypeptide binding]; other site 570508000030 mobile loop; other site 570508000031 roof hairpin; other site 570508000032 DNA primase, catalytic core; Region: dnaG; TIGR01391 570508000033 CHC2 zinc finger; Region: zf-CHC2; pfam01807 570508000034 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 570508000035 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 570508000036 active site 570508000037 metal binding site [ion binding]; metal-binding site 570508000038 interdomain interaction site; other site 570508000039 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 570508000040 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 570508000041 Ligand Binding Site [chemical binding]; other site 570508000042 TrbC/VIRB2 family; Region: TrbC; cl01583 570508000043 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 570508000044 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 570508000045 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 570508000046 Walker A motif; other site 570508000047 ATP binding site [chemical binding]; other site 570508000048 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 570508000049 Walker B motif; other site 570508000050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 570508000051 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 570508000052 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 570508000053 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 570508000054 active site 570508000055 phosphorylation site [posttranslational modification] 570508000056 intermolecular recognition site; other site 570508000057 dimerization interface [polypeptide binding]; other site 570508000058 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 570508000059 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 570508000060 dimer interface [polypeptide binding]; other site 570508000061 active site 570508000062 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 570508000063 catalytic residues [active] 570508000064 substrate binding site [chemical binding]; other site 570508000065 lipid A 1-phosphatase; Reviewed; Region: PRK09597 570508000066 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 570508000067 active site 570508000068 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 570508000069 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 570508000070 Sulfatase; Region: Sulfatase; pfam00884 570508000071 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508000072 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 570508000073 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 570508000074 dimer interface [polypeptide binding]; other site 570508000075 active site 570508000076 citrylCoA binding site [chemical binding]; other site 570508000077 NADH binding [chemical binding]; other site 570508000078 cationic pore residues; other site 570508000079 oxalacetate/citrate binding site [chemical binding]; other site 570508000080 coenzyme A binding site [chemical binding]; other site 570508000081 catalytic triad [active] 570508000082 isocitrate dehydrogenase; Validated; Region: PRK07362 570508000083 isocitrate dehydrogenase; Reviewed; Region: PRK07006 570508000084 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 570508000085 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 570508000086 AAA domain; Region: AAA_26; pfam13500 570508000087 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 570508000088 Ligand Binding Site [chemical binding]; other site 570508000089 Uncharacterized conserved protein [Function unknown]; Region: COG2127 570508000090 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 570508000091 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 570508000092 Walker A motif; other site 570508000093 ATP binding site [chemical binding]; other site 570508000094 Walker B motif; other site 570508000095 arginine finger; other site 570508000096 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 570508000097 Walker A motif; other site 570508000098 ATP binding site [chemical binding]; other site 570508000099 Walker B motif; other site 570508000100 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 570508000101 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 570508000102 tetramerization interface [polypeptide binding]; other site 570508000103 active site 570508000104 hypothetical protein; Provisional; Region: PRK03762 570508000105 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 570508000106 protein binding site [polypeptide binding]; other site 570508000107 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 570508000108 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 570508000109 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 570508000110 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 570508000111 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 570508000112 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 570508000113 VirB7 interaction site; other site 570508000114 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 570508000115 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 570508000116 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 570508000117 Substrate binding site; other site 570508000118 Cupin domain; Region: Cupin_2; cl17218 570508000119 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 570508000120 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 570508000121 NADP-binding site; other site 570508000122 homotetramer interface [polypeptide binding]; other site 570508000123 substrate binding site [chemical binding]; other site 570508000124 homodimer interface [polypeptide binding]; other site 570508000125 active site 570508000126 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 570508000127 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 570508000128 NADP binding site [chemical binding]; other site 570508000129 active site 570508000130 putative substrate binding site [chemical binding]; other site 570508000131 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 570508000132 dimerization interface [polypeptide binding]; other site 570508000133 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 570508000134 ATP binding site [chemical binding]; other site 570508000135 Acylphosphatase; Region: Acylphosphatase; pfam00708 570508000136 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 570508000137 HypF finger; Region: zf-HYPF; pfam07503 570508000138 HypF finger; Region: zf-HYPF; pfam07503 570508000139 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 570508000140 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957 570508000141 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 570508000142 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 570508000143 DNA methylase; Region: N6_N4_Mtase; pfam01555 570508000144 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 570508000145 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 570508000146 cofactor binding site; other site 570508000147 DNA binding site [nucleotide binding] 570508000148 substrate interaction site [chemical binding]; other site 570508000149 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 570508000150 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 570508000151 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 570508000152 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 570508000153 cofactor binding site; other site 570508000154 DNA binding site [nucleotide binding] 570508000155 substrate interaction site [chemical binding]; other site 570508000156 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 570508000157 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 570508000158 S-adenosylmethionine binding site [chemical binding]; other site 570508000159 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 570508000160 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 570508000161 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 570508000162 Na binding site [ion binding]; other site 570508000163 Proline dehydrogenase; Region: Pro_dh; pfam01619 570508000164 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 570508000165 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 570508000166 Glutamate binding site [chemical binding]; other site 570508000167 NAD binding site [chemical binding]; other site 570508000168 catalytic residues [active] 570508000169 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 570508000170 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 570508000171 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 570508000172 nucleotide binding site [chemical binding]; other site 570508000173 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 570508000174 A nuclease of the HNH/ENDO VII superfamily with conserved WHH; Region: WHH; pfam14414 570508000175 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 570508000176 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 570508000177 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 570508000178 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 570508000179 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 570508000180 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 570508000181 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 570508000182 G1 box; other site 570508000183 GTP/Mg2+ binding site [chemical binding]; other site 570508000184 G2 box; other site 570508000185 Switch I region; other site 570508000186 G3 box; other site 570508000187 Switch II region; other site 570508000188 G4 box; other site 570508000189 G5 box; other site 570508000190 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 570508000191 UreF; Region: UreF; pfam01730 570508000192 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 570508000193 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 570508000194 dimer interface [polypeptide binding]; other site 570508000195 catalytic residues [active] 570508000196 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 570508000197 urease subunit beta; Provisional; Region: ureB; PRK13985 570508000198 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 570508000199 subunit interactions [polypeptide binding]; other site 570508000200 active site 570508000201 flap region; other site 570508000202 urease subunit alpha; Provisional; Region: PRK13986 570508000203 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 570508000204 alpha-gamma subunit interface [polypeptide binding]; other site 570508000205 beta-gamma subunit interface [polypeptide binding]; other site 570508000206 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 570508000207 gamma-beta subunit interface [polypeptide binding]; other site 570508000208 alpha-beta subunit interface [polypeptide binding]; other site 570508000209 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 570508000210 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 570508000211 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 570508000212 active site 570508000213 substrate binding site [chemical binding]; other site 570508000214 metal binding site [ion binding]; metal-binding site 570508000215 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 570508000216 peptide chain release factor 1; Validated; Region: prfA; PRK00591 570508000217 This domain is found in peptide chain release factors; Region: PCRF; smart00937 570508000218 RF-1 domain; Region: RF-1; pfam00472 570508000219 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508000220 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 570508000221 dimer interface [polypeptide binding]; other site 570508000222 putative CheW interface [polypeptide binding]; other site 570508000223 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 570508000224 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 570508000225 23S rRNA interface [nucleotide binding]; other site 570508000226 L3 interface [polypeptide binding]; other site 570508000227 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 570508000228 Predicted dehydrogenase [General function prediction only]; Region: COG0579 570508000229 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 570508000230 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 570508000231 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 570508000232 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 570508000233 NlpC/P60 family; Region: NLPC_P60; pfam00877 570508000234 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 570508000235 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 570508000236 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 570508000237 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 570508000238 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 570508000239 DNA binding residues [nucleotide binding] 570508000240 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 570508000241 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 570508000242 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 570508000243 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 570508000244 DpnII restriction endonuclease; Region: DpnII; pfam04556 570508000245 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 570508000246 DNA methylase; Region: N6_N4_Mtase; pfam01555 570508000247 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 570508000248 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 570508000249 GDP-Fucose binding site [chemical binding]; other site 570508000250 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 570508000251 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 570508000252 NAD binding site [chemical binding]; other site 570508000253 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 570508000254 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 570508000255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 570508000256 catalytic residue [active] 570508000257 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 570508000258 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 570508000259 dimer interface [polypeptide binding]; other site 570508000260 putative CheW interface [polypeptide binding]; other site 570508000261 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 570508000262 Ligand Binding Site [chemical binding]; other site 570508000263 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508000264 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 570508000265 metal-binding site 570508000266 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 570508000267 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 570508000268 dimerization interface [polypeptide binding]; other site 570508000269 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 570508000270 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 570508000271 dimer interface [polypeptide binding]; other site 570508000272 putative CheW interface [polypeptide binding]; other site 570508000273 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 570508000274 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 570508000275 active site 570508000276 metal binding site [ion binding]; metal-binding site 570508000277 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 570508000278 S-ribosylhomocysteinase; Provisional; Region: PRK02260 570508000279 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 570508000280 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 570508000281 homodimer interface [polypeptide binding]; other site 570508000282 substrate-cofactor binding pocket; other site 570508000283 pyridoxal 5'-phosphate binding site [chemical binding]; other site 570508000284 catalytic residue [active] 570508000285 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 570508000286 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 570508000287 dimer interface [polypeptide binding]; other site 570508000288 pyridoxal 5'-phosphate binding site [chemical binding]; other site 570508000289 catalytic residue [active] 570508000290 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 570508000291 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 570508000292 nucleotide binding site [chemical binding]; other site 570508000293 NEF interaction site [polypeptide binding]; other site 570508000294 SBD interface [polypeptide binding]; other site 570508000295 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 570508000296 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 570508000297 dimer interface [polypeptide binding]; other site 570508000298 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 570508000299 heat-inducible transcription repressor; Provisional; Region: PRK03911 570508000300 hypothetical protein; Provisional; Region: PRK05834 570508000301 intersubunit interface [polypeptide binding]; other site 570508000302 active site 570508000303 Zn2+ binding site [ion binding]; other site 570508000304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 570508000305 flagellin B; Provisional; Region: PRK13588 570508000306 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 570508000307 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 570508000308 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 570508000309 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 570508000310 DNA topoisomerase I; Validated; Region: PRK05582 570508000311 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 570508000312 active site 570508000313 interdomain interaction site; other site 570508000314 putative metal-binding site [ion binding]; other site 570508000315 nucleotide binding site [chemical binding]; other site 570508000316 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 570508000317 domain I; other site 570508000318 DNA binding groove [nucleotide binding] 570508000319 phosphate binding site [ion binding]; other site 570508000320 domain II; other site 570508000321 domain III; other site 570508000322 nucleotide binding site [chemical binding]; other site 570508000323 catalytic site [active] 570508000324 domain IV; other site 570508000325 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 570508000326 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 570508000327 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 570508000328 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 570508000329 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 570508000330 FeS/SAM binding site; other site 570508000331 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 570508000332 phosphoenolpyruvate synthase; Validated; Region: PRK06464 570508000333 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 570508000334 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 570508000335 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 570508000336 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 570508000337 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 570508000338 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 570508000339 active site 570508000340 dimer interface [polypeptide binding]; other site 570508000341 motif 1; other site 570508000342 motif 2; other site 570508000343 motif 3; other site 570508000344 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 570508000345 anticodon binding site; other site 570508000346 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 570508000347 translation initiation factor IF-3; Region: infC; TIGR00168 570508000348 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 570508000349 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 570508000350 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 570508000351 23S rRNA binding site [nucleotide binding]; other site 570508000352 L21 binding site [polypeptide binding]; other site 570508000353 L13 binding site [polypeptide binding]; other site 570508000354 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508000355 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 570508000356 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 570508000357 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 570508000358 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 570508000359 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 570508000360 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 570508000361 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG3200 570508000362 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 570508000363 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 570508000364 catalytic triad [active] 570508000365 Uncharacterized conserved protein [Function unknown]; Region: COG1556 570508000366 iron-sulfur cluster-binding protein; Region: TIGR00273 570508000367 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 570508000368 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 570508000369 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 570508000370 Cysteine-rich domain; Region: CCG; pfam02754 570508000371 Cysteine-rich domain; Region: CCG; pfam02754 570508000372 L-lactate transport; Region: lctP; TIGR00795 570508000373 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 570508000374 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 570508000375 L-lactate transport; Region: lctP; TIGR00795 570508000376 DNA glycosylase MutY; Provisional; Region: PRK13910 570508000377 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 570508000378 minor groove reading motif; other site 570508000379 helix-hairpin-helix signature motif; other site 570508000380 substrate binding pocket [chemical binding]; other site 570508000381 active site 570508000382 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 570508000383 DNA binding and oxoG recognition site [nucleotide binding] 570508000384 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 570508000385 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 570508000386 transmembrane helices; other site 570508000387 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 570508000388 Low-spin heme binding site [chemical binding]; other site 570508000389 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 570508000390 D-pathway; other site 570508000391 Putative water exit pathway; other site 570508000392 Binuclear center (active site) [active] 570508000393 K-pathway; other site 570508000394 Putative proton exit pathway; other site 570508000395 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 570508000396 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 570508000397 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 570508000398 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 570508000399 Cytochrome c; Region: Cytochrom_C; pfam00034 570508000400 Cytochrome c; Region: Cytochrom_C; pfam00034 570508000401 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 570508000402 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 570508000403 recombinase A; Provisional; Region: recA; PRK09354 570508000404 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 570508000405 hexamer interface [polypeptide binding]; other site 570508000406 Walker A motif; other site 570508000407 ATP binding site [chemical binding]; other site 570508000408 Walker B motif; other site 570508000409 enolase; Provisional; Region: eno; PRK00077 570508000410 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 570508000411 dimer interface [polypeptide binding]; other site 570508000412 metal binding site [ion binding]; metal-binding site 570508000413 substrate binding pocket [chemical binding]; other site 570508000414 AMIN domain; Region: AMIN; pfam11741 570508000415 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 570508000416 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 570508000417 ADP binding site [chemical binding]; other site 570508000418 magnesium binding site [ion binding]; other site 570508000419 putative shikimate binding site; other site 570508000420 Cache domain; Region: Cache_1; pfam02743 570508000421 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 570508000422 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 570508000423 Ligand binding site; other site 570508000424 metal-binding site 570508000425 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 570508000426 Sel1-like repeats; Region: SEL1; smart00671 570508000427 Sel1-like repeats; Region: SEL1; smart00671 570508000428 Sel1-like repeats; Region: SEL1; smart00671 570508000429 Sel1-like repeats; Region: SEL1; smart00671 570508000430 Sel1-like repeats; Region: SEL1; smart00671 570508000431 hypothetical protein; Provisional; Region: PRK12378 570508000432 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 570508000433 dimer interface [polypeptide binding]; other site 570508000434 active site 570508000435 Schiff base residues; other site 570508000436 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 570508000437 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 570508000438 dimerization interface [polypeptide binding]; other site 570508000439 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 570508000440 dimer interface [polypeptide binding]; other site 570508000441 phosphorylation site [posttranslational modification] 570508000442 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 570508000443 ATP binding site [chemical binding]; other site 570508000444 Mg2+ binding site [ion binding]; other site 570508000445 G-X-G motif; other site 570508000446 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 570508000447 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 570508000448 active site 570508000449 phosphorylation site [posttranslational modification] 570508000450 intermolecular recognition site; other site 570508000451 dimerization interface [polypeptide binding]; other site 570508000452 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 570508000453 DNA binding site [nucleotide binding] 570508000454 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 570508000455 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 570508000456 Peptidase family U32; Region: Peptidase_U32; pfam01136 570508000457 peptide chain release factor 2; Region: prfB; TIGR00020 570508000458 This domain is found in peptide chain release factors; Region: PCRF; smart00937 570508000459 RF-1 domain; Region: RF-1; pfam00472 570508000460 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 570508000461 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 570508000462 dimer interface [polypeptide binding]; other site 570508000463 putative functional site; other site 570508000464 putative MPT binding site; other site 570508000465 flagellar biosynthetic protein FliR; Region: fliR; TIGR01400 570508000466 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 570508000467 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 570508000468 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 570508000469 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 570508000470 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 570508000471 intersubunit interface [polypeptide binding]; other site 570508000472 active site 570508000473 zinc binding site [ion binding]; other site 570508000474 Na+ binding site [ion binding]; other site 570508000475 elongation factor P; Validated; Region: PRK00529 570508000476 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 570508000477 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 570508000478 RNA binding site [nucleotide binding]; other site 570508000479 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 570508000480 RNA binding site [nucleotide binding]; other site 570508000481 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 570508000482 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 570508000483 pseudaminic acid synthase; Region: PseI; TIGR03586 570508000484 NeuB family; Region: NeuB; pfam03102 570508000485 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 570508000486 NeuB binding interface [polypeptide binding]; other site 570508000487 putative substrate binding site [chemical binding]; other site 570508000488 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 570508000489 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 570508000490 Walker A/P-loop; other site 570508000491 ATP binding site [chemical binding]; other site 570508000492 Q-loop/lid; other site 570508000493 ABC transporter signature motif; other site 570508000494 Walker B; other site 570508000495 D-loop; other site 570508000496 H-loop/switch region; other site 570508000497 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 570508000498 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 570508000499 active site 570508000500 catalytic triad [active] 570508000501 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 570508000502 Colicin V production protein; Region: Colicin_V; pfam02674 570508000503 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 570508000504 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 570508000505 dimer interface [polypeptide binding]; other site 570508000506 putative anticodon binding site; other site 570508000507 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 570508000508 motif 1; other site 570508000509 active site 570508000510 motif 2; other site 570508000511 motif 3; other site 570508000512 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 570508000513 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 570508000514 dimer interface [polypeptide binding]; other site 570508000515 active site 570508000516 glycine-pyridoxal phosphate binding site [chemical binding]; other site 570508000517 folate binding site [chemical binding]; other site 570508000518 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 570508000519 nucleotide binding site [chemical binding]; other site 570508000520 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 570508000521 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 570508000522 Uncharacterized conserved protein [Function unknown]; Region: COG1479 570508000523 Protein of unknown function DUF262; Region: DUF262; pfam03235 570508000524 Uncharacterized conserved protein [Function unknown]; Region: COG1479 570508000525 Protein of unknown function DUF262; Region: DUF262; pfam03235 570508000526 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 570508000527 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 570508000528 putative active site [active] 570508000529 catalytic site [active] 570508000530 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 570508000531 PLD-like domain; Region: PLDc_2; pfam13091 570508000532 putative active site [active] 570508000533 catalytic site [active] 570508000534 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 570508000535 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 570508000536 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 570508000537 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 570508000538 L-aspartate oxidase; Provisional; Region: PRK06175 570508000539 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 570508000540 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 570508000541 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 570508000542 Iron-sulfur protein interface; other site 570508000543 proximal heme binding site [chemical binding]; other site 570508000544 distal heme binding site [chemical binding]; other site 570508000545 dimer interface [polypeptide binding]; other site 570508000546 triosephosphate isomerase; Provisional; Region: PRK14567 570508000547 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 570508000548 substrate binding site [chemical binding]; other site 570508000549 dimer interface [polypeptide binding]; other site 570508000550 catalytic triad [active] 570508000551 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 570508000552 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 570508000553 NAD binding site [chemical binding]; other site 570508000554 homotetramer interface [polypeptide binding]; other site 570508000555 homodimer interface [polypeptide binding]; other site 570508000556 substrate binding site [chemical binding]; other site 570508000557 active site 570508000558 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 570508000559 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 570508000560 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 570508000561 trimer interface [polypeptide binding]; other site 570508000562 active site 570508000563 UDP-GlcNAc binding site [chemical binding]; other site 570508000564 lipid binding site [chemical binding]; lipid-binding site 570508000565 S-adenosylmethionine synthetase; Validated; Region: PRK05250 570508000566 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 570508000567 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 570508000568 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 570508000569 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 570508000570 active site 570508000571 multimer interface [polypeptide binding]; other site 570508000572 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 570508000573 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 570508000574 fatty acid/phospholipid synthesis protein PlsX; Region: plsX; TIGR00182 570508000575 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 570508000576 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 570508000577 dimer interface [polypeptide binding]; other site 570508000578 active site 570508000579 CoA binding pocket [chemical binding]; other site 570508000580 AAA ATPase domain; Region: AAA_15; pfam13175 570508000581 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 570508000582 Walker B; other site 570508000583 D-loop; other site 570508000584 H-loop/switch region; other site 570508000585 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 570508000586 Walker A/P-loop; other site 570508000587 ATP binding site [chemical binding]; other site 570508000588 antiporter inner membrane protein; Provisional; Region: PRK11670 570508000589 Domain of unknown function DUF59; Region: DUF59; pfam01883 570508000590 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 570508000591 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 570508000592 heat shock protein 90; Provisional; Region: PRK05218 570508000593 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 570508000594 ATP binding site [chemical binding]; other site 570508000595 Mg2+ binding site [ion binding]; other site 570508000596 G-X-G motif; other site 570508000597 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 570508000598 Sel1-like repeats; Region: SEL1; smart00671 570508000599 Sel1-like repeats; Region: SEL1; smart00671 570508000600 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 570508000601 TPR motif; other site 570508000602 binding surface 570508000603 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 570508000604 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 570508000605 metal binding site [ion binding]; metal-binding site 570508000606 dimer interface [polypeptide binding]; other site 570508000607 glucose-inhibited division protein A; Region: gidA; TIGR00136 570508000608 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 570508000609 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 570508000610 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 570508000611 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 570508000612 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 570508000613 transmembrane helices; other site 570508000614 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 570508000615 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 570508000616 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: Dxr; TIGR00243 570508000617 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 570508000618 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 570508000619 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 570508000620 Beta-1,4-N-acetylgalactosaminyltransferase (CgtA); Region: CgtA; pfam06306 570508000621 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 570508000622 substrate binding site [chemical binding]; other site 570508000623 Helix-turn-helix domain; Region: HTH_28; pfam13518 570508000624 cysteine desulfurase, NifS family, epsilon proteobacteria type; Region: nifS_epsilon; TIGR03403 570508000625 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 570508000626 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 570508000627 catalytic residue [active] 570508000628 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 570508000629 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 570508000630 trimerization site [polypeptide binding]; other site 570508000631 active site 570508000632 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 570508000633 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 570508000634 DNA repair protein RadA; Region: sms; TIGR00416 570508000635 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 570508000636 Walker A motif/ATP binding site; other site 570508000637 ATP binding site [chemical binding]; other site 570508000638 Walker B motif; other site 570508000639 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 570508000640 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 570508000641 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 570508000642 SelR domain; Region: SelR; pfam01641 570508000643 Predicted permeases [General function prediction only]; Region: COG0730 570508000644 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508000645 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 570508000646 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 570508000647 Sulfate transporter family; Region: Sulfate_transp; pfam00916 570508000648 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508000649 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 570508000650 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 570508000651 Ligand binding site; other site 570508000652 oligomer interface; other site 570508000653 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 570508000654 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 570508000655 hypothetical protein; Provisional; Region: PRK04081 570508000656 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 570508000657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 570508000658 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 570508000659 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 570508000660 binding surface 570508000661 TPR motif; other site 570508000662 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 570508000663 binding surface 570508000664 TPR motif; other site 570508000665 Sel1-like repeats; Region: SEL1; smart00671 570508000666 Sel1-like repeats; Region: SEL1; smart00671 570508000667 Cytochrome c; Region: Cytochrom_C; cl11414 570508000668 Porphobilinogen deaminase [Coenzyme metabolism]; Region: HemC; COG0181 570508000669 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 570508000670 domain interfaces; other site 570508000671 active site 570508000672 prolyl-tRNA synthetase, family II; Region: proS_fam_II; TIGR00409 570508000673 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 570508000674 dimer interface [polypeptide binding]; other site 570508000675 motif 1; other site 570508000676 active site 570508000677 motif 2; other site 570508000678 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 570508000679 putative deacylase active site [active] 570508000680 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 570508000681 active site 570508000682 motif 3; other site 570508000683 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 570508000684 anticodon binding site; other site 570508000685 glutamyl-tRNA reductase; Region: hemA; TIGR01035 570508000686 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 570508000687 tRNA; other site 570508000688 putative tRNA binding site [nucleotide binding]; other site 570508000689 putative NADP binding site [chemical binding]; other site 570508000690 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 570508000691 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 570508000692 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 570508000693 substrate binding pocket [chemical binding]; other site 570508000694 chain length determination region; other site 570508000695 substrate-Mg2+ binding site; other site 570508000696 catalytic residues [active] 570508000697 aspartate-rich region 1; other site 570508000698 active site lid residues [active] 570508000699 aspartate-rich region 2; other site 570508000700 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 570508000701 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 570508000702 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 570508000703 dimerization interface [polypeptide binding]; other site 570508000704 DPS ferroxidase diiron center [ion binding]; other site 570508000705 ion pore; other site 570508000706 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 570508000707 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 570508000708 dimer interface [polypeptide binding]; other site 570508000709 phosphorylation site [posttranslational modification] 570508000710 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 570508000711 ATP binding site [chemical binding]; other site 570508000712 Mg2+ binding site [ion binding]; other site 570508000713 G-X-G motif; other site 570508000714 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 570508000715 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 570508000716 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 570508000717 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 570508000718 ATP binding site [chemical binding]; other site 570508000719 Mg++ binding site [ion binding]; other site 570508000720 motif III; other site 570508000721 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 570508000722 nucleotide binding region [chemical binding]; other site 570508000723 ATP-binding site [chemical binding]; other site 570508000724 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 570508000725 SPFH domain / Band 7 family; Region: Band_7; pfam01145 570508000726 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 570508000727 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 570508000728 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 570508000729 Walker A/P-loop; other site 570508000730 ATP binding site [chemical binding]; other site 570508000731 Q-loop/lid; other site 570508000732 ABC transporter signature motif; other site 570508000733 Walker B; other site 570508000734 D-loop; other site 570508000735 H-loop/switch region; other site 570508000736 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 570508000737 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 570508000738 Walker A/P-loop; other site 570508000739 ATP binding site [chemical binding]; other site 570508000740 Q-loop/lid; other site 570508000741 ABC transporter signature motif; other site 570508000742 Walker B; other site 570508000743 D-loop; other site 570508000744 H-loop/switch region; other site 570508000745 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 570508000746 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508000747 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508000748 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 570508000749 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 570508000750 GDP-binding site [chemical binding]; other site 570508000751 ACT binding site; other site 570508000752 IMP binding site; other site 570508000753 Flagellar FliJ protein; Region: FliJ; pfam02050 570508000754 Uncharacterized conserved protein [Function unknown]; Region: COG3334 570508000755 RIP metalloprotease RseP; Region: TIGR00054 570508000756 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 570508000757 active site 570508000758 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 570508000759 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 570508000760 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 570508000761 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 570508000762 generic binding surface II; other site 570508000763 generic binding surface I; other site 570508000764 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 570508000765 DNA methylase; Region: N6_N4_Mtase; pfam01555 570508000766 DNA methylase; Region: N6_N4_Mtase; pfam01555 570508000767 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 570508000768 DNA methylase; Region: N6_N4_Mtase; pfam01555 570508000769 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 570508000770 Clp amino terminal domain; Region: Clp_N; pfam02861 570508000771 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 570508000772 Walker A motif; other site 570508000773 ATP binding site [chemical binding]; other site 570508000774 Walker B motif; other site 570508000775 arginine finger; other site 570508000776 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 570508000777 Walker A motif; other site 570508000778 ATP binding site [chemical binding]; other site 570508000779 Walker B motif; other site 570508000780 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 570508000781 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 570508000782 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 570508000783 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 570508000784 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 570508000785 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 570508000786 active site 570508000787 chlorohydrolase; Provisional; Region: PRK08418 570508000788 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 570508000789 active site 570508000790 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 570508000791 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 570508000792 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 570508000793 FeS/SAM binding site; other site 570508000794 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 570508000795 putative acyl-acceptor binding pocket; other site 570508000796 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 570508000797 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 570508000798 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 570508000799 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 570508000800 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 570508000801 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 570508000802 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 570508000803 putative active site [active] 570508000804 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 570508000805 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 570508000806 putative acyl-acceptor binding pocket; other site 570508000807 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 570508000808 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 570508000809 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 570508000810 TrkA-C domain; Region: TrkA_C; pfam02080 570508000811 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 570508000812 active site 570508000813 dimer interface [polypeptide binding]; other site 570508000814 metal binding site [ion binding]; metal-binding site 570508000815 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 570508000816 Mechanosensitive ion channel; Region: MS_channel; pfam00924 570508000817 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 570508000818 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 570508000819 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 570508000820 FeS/SAM binding site; other site 570508000821 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 570508000822 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 570508000823 Walker A motif; other site 570508000824 ATP binding site [chemical binding]; other site 570508000825 Walker B motif; other site 570508000826 arginine finger; other site 570508000827 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 570508000828 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 570508000829 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 570508000830 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 570508000831 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 570508000832 Autotransporter beta-domain; Region: Autotransporter; pfam03797 570508000833 diaminopimelate decarboxylase; Region: lysA; TIGR01048 570508000834 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 570508000835 active site 570508000836 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 570508000837 substrate binding site [chemical binding]; other site 570508000838 catalytic residues [active] 570508000839 dimer interface [polypeptide binding]; other site 570508000840 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 570508000841 Uncharacterized conserved protein [Function unknown]; Region: COG4866 570508000842 aminodeoxychorismate synthase; Provisional; Region: PRK07508 570508000843 chorismate binding enzyme; Region: Chorismate_bind; cl10555 570508000844 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 570508000845 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 570508000846 substrate-cofactor binding pocket; other site 570508000847 pyridoxal 5'-phosphate binding site [chemical binding]; other site 570508000848 catalytic residue [active] 570508000849 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 570508000850 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 570508000851 multimer interface [polypeptide binding]; other site 570508000852 active site 570508000853 catalytic triad [active] 570508000854 dimer interface [polypeptide binding]; other site 570508000855 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08412 570508000856 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 570508000857 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 570508000858 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 570508000859 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 570508000860 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 570508000861 peptide binding site [polypeptide binding]; other site 570508000862 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 570508000863 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 570508000864 dimer interface [polypeptide binding]; other site 570508000865 conserved gate region; other site 570508000866 putative PBP binding loops; other site 570508000867 ABC-ATPase subunit interface; other site 570508000868 dipeptide transporter; Provisional; Region: PRK10913 570508000869 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 570508000870 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 570508000871 dimer interface [polypeptide binding]; other site 570508000872 conserved gate region; other site 570508000873 putative PBP binding loops; other site 570508000874 ABC-ATPase subunit interface; other site 570508000875 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 570508000876 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 570508000877 Walker A/P-loop; other site 570508000878 ATP binding site [chemical binding]; other site 570508000879 Q-loop/lid; other site 570508000880 ABC transporter signature motif; other site 570508000881 Walker B; other site 570508000882 D-loop; other site 570508000883 H-loop/switch region; other site 570508000884 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 570508000885 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 570508000886 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 570508000887 Walker A/P-loop; other site 570508000888 ATP binding site [chemical binding]; other site 570508000889 Q-loop/lid; other site 570508000890 ABC transporter signature motif; other site 570508000891 Walker B; other site 570508000892 D-loop; other site 570508000893 H-loop/switch region; other site 570508000894 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 570508000895 GTPase CgtA; Reviewed; Region: obgE; PRK12299 570508000896 GTP1/OBG; Region: GTP1_OBG; pfam01018 570508000897 Obg GTPase; Region: Obg; cd01898 570508000898 G1 box; other site 570508000899 GTP/Mg2+ binding site [chemical binding]; other site 570508000900 Switch I region; other site 570508000901 G2 box; other site 570508000902 G3 box; other site 570508000903 Switch II region; other site 570508000904 G4 box; other site 570508000905 G5 box; other site 570508000906 Alginate lyase; Region: Alginate_lyase; pfam05426 570508000907 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 570508000908 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 570508000909 inhibitor-cofactor binding pocket; inhibition site 570508000910 pyridoxal 5'-phosphate binding site [chemical binding]; other site 570508000911 catalytic residue [active] 570508000912 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 570508000913 Predicted amidohydrolase [General function prediction only]; Region: COG0388 570508000914 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 570508000915 active site 570508000916 catalytic triad [active] 570508000917 dimer interface [polypeptide binding]; other site 570508000918 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 570508000919 active site 570508000920 catalytic site [active] 570508000921 Zn binding site [ion binding]; other site 570508000922 tetramer interface [polypeptide binding]; other site 570508000923 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 570508000924 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 570508000925 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 570508000926 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 570508000927 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 570508000928 Major Facilitator Superfamily; Region: MFS_1; pfam07690 570508000929 putative substrate translocation pore; other site 570508000930 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 570508000931 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 570508000932 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 570508000933 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 570508000934 arginyl-tRNA synthetase; Region: argS; TIGR00456 570508000935 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 570508000936 active site 570508000937 HIGH motif; other site 570508000938 KMSK motif region; other site 570508000939 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 570508000940 tRNA binding surface [nucleotide binding]; other site 570508000941 anticodon binding site; other site 570508000942 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 570508000943 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 570508000944 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 570508000945 catalytic site [active] 570508000946 G-X2-G-X-G-K; other site 570508000947 nuclease NucT; Provisional; Region: PRK13912 570508000948 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 570508000949 putative active site [active] 570508000950 catalytic site [active] 570508000951 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508000952 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 570508000953 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 570508000954 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 570508000955 ligand binding site; other site 570508000956 tetramer interface; other site 570508000957 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 570508000958 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 570508000959 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 570508000960 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 570508000961 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 570508000962 NAD synthetase; Provisional; Region: PRK13980 570508000963 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 570508000964 homodimer interface [polypeptide binding]; other site 570508000965 NAD binding pocket [chemical binding]; other site 570508000966 ATP binding pocket [chemical binding]; other site 570508000967 Mg binding site [ion binding]; other site 570508000968 active-site loop [active] 570508000969 ketol-acid reductoisomerase; Provisional; Region: PRK05479 570508000970 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 570508000971 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 570508000972 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 570508000973 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 570508000974 Switch I; other site 570508000975 Switch II; other site 570508000976 cell division topological specificity factor MinE; Region: minE; TIGR01215 570508000977 DNA protecting protein DprA; Region: dprA; TIGR00732 570508000978 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 570508000979 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 570508000980 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 570508000981 Sel1-like repeats; Region: SEL1; smart00671 570508000982 Sel1-like repeats; Region: SEL1; smart00671 570508000983 Sel1-like repeats; Region: SEL1; smart00671 570508000984 Sel1-like repeats; Region: SEL1; smart00671 570508000985 catalytic residue [active] 570508000986 Phage lysozyme; Region: Phage_lysozyme; pfam00959 570508000987 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 570508000988 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 570508000989 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 570508000990 active site 570508000991 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 570508000992 DHH family; Region: DHH; pfam01368 570508000993 DHHA1 domain; Region: DHHA1; pfam02272 570508000994 CTP synthetase; Validated; Region: pyrG; PRK05380 570508000995 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 570508000996 Catalytic site [active] 570508000997 active site 570508000998 UTP binding site [chemical binding]; other site 570508000999 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 570508001000 active site 570508001001 putative oxyanion hole; other site 570508001002 catalytic triad [active] 570508001003 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 570508001004 active site 570508001005 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 570508001006 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 570508001007 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 570508001008 flagellar motor switch protein FliG; Region: fliG; TIGR00207 570508001009 FliG C-terminal domain; Region: FliG_C; pfam01706 570508001010 flagellar assembly protein H; Validated; Region: fliH; PRK06669 570508001011 Flagellar assembly protein FliH; Region: FliH; pfam02108 570508001012 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 570508001013 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 570508001014 TPP-binding site; other site 570508001015 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 570508001016 PYR/PP interface [polypeptide binding]; other site 570508001017 dimer interface [polypeptide binding]; other site 570508001018 TPP binding site [chemical binding]; other site 570508001019 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 570508001020 GTP-binding protein LepA; Provisional; Region: PRK05433 570508001021 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 570508001022 G1 box; other site 570508001023 putative GEF interaction site [polypeptide binding]; other site 570508001024 GTP/Mg2+ binding site [chemical binding]; other site 570508001025 Switch I region; other site 570508001026 G2 box; other site 570508001027 G3 box; other site 570508001028 Switch II region; other site 570508001029 G4 box; other site 570508001030 G5 box; other site 570508001031 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 570508001032 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 570508001033 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 570508001034 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 570508001035 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 570508001036 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 570508001037 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 570508001038 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 570508001039 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 570508001040 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 570508001041 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 570508001042 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 570508001043 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 570508001044 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 570508001045 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 570508001046 TPP-binding site [chemical binding]; other site 570508001047 dimer interface [polypeptide binding]; other site 570508001048 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 570508001049 PYR/PP interface [polypeptide binding]; other site 570508001050 dimer interface [polypeptide binding]; other site 570508001051 TPP binding site [chemical binding]; other site 570508001052 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 570508001053 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 570508001054 riboflavin kinase/FMN adenylyltransferase; Region: ribF; TIGR00083 570508001055 active site 570508001056 Riboflavin kinase; Region: Flavokinase; smart00904 570508001057 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 570508001058 hemolysin TlyA family protein; Region: tly; TIGR00478 570508001059 RNA binding surface [nucleotide binding]; other site 570508001060 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 570508001061 S-adenosylmethionine binding site [chemical binding]; other site 570508001062 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 570508001063 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 570508001064 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 570508001065 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 570508001066 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 570508001067 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 570508001068 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 570508001069 Walker A/P-loop; other site 570508001070 ATP binding site [chemical binding]; other site 570508001071 Q-loop/lid; other site 570508001072 ABC transporter signature motif; other site 570508001073 Walker B; other site 570508001074 D-loop; other site 570508001075 H-loop/switch region; other site 570508001076 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 570508001077 Predicted endonuclease distantly related to archaeal Holliday junction resolvase and Mrr-like restriction enzymes [Defense mechanisms]; Region: COG1787 570508001078 Restriction endonuclease; Region: Mrr_cat; pfam04471 570508001079 Predicted ATPases [General function prediction only]; Region: COG1106 570508001080 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 570508001081 Walker A/P-loop; other site 570508001082 ATP binding site [chemical binding]; other site 570508001083 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 570508001084 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 570508001085 active site 570508001086 Zn binding site [ion binding]; other site 570508001087 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 570508001088 metal-binding site [ion binding] 570508001089 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 570508001090 metal-binding site [ion binding] 570508001091 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 570508001092 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 570508001093 Soluble P-type ATPase [General function prediction only]; Region: COG4087 570508001094 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 570508001095 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 570508001096 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 570508001097 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 570508001098 Walker A motif; other site 570508001099 ATP binding site [chemical binding]; other site 570508001100 Walker B motif; other site 570508001101 arginine finger; other site 570508001102 Peptidase family M41; Region: Peptidase_M41; pfam01434 570508001103 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 570508001104 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 570508001105 S-adenosylmethionine binding site [chemical binding]; other site 570508001106 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 570508001107 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 570508001108 active site 570508001109 phosphorylation site [posttranslational modification] 570508001110 intermolecular recognition site; other site 570508001111 dimerization interface [polypeptide binding]; other site 570508001112 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508001113 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 570508001114 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Region: gidB; TIGR00138 570508001115 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 570508001116 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 570508001117 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 570508001118 sec-independent translocase; Provisional; Region: PRK04098 570508001119 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 570508001120 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 570508001121 Walker A motif; other site 570508001122 ATP binding site [chemical binding]; other site 570508001123 Walker B motif; other site 570508001124 arginine finger; other site 570508001125 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 570508001126 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 570508001127 oligomerization interface [polypeptide binding]; other site 570508001128 active site 570508001129 metal binding site [ion binding]; metal-binding site 570508001130 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508001131 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508001132 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 570508001133 septum formation inhibitor; Reviewed; Region: minC; PRK00556 570508001134 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 570508001135 UDP-3-0-acyl N-acetylglucosamine deacetylase; Region: lpxC; TIGR00325 570508001136 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 570508001137 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 570508001138 homoserine kinase; Region: thrB; TIGR00191 570508001139 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 570508001140 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 570508001141 putative RNA binding cleft [nucleotide binding]; other site 570508001142 translation initiation factor IF-2; Region: IF-2; TIGR00487 570508001143 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 570508001144 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 570508001145 G1 box; other site 570508001146 putative GEF interaction site [polypeptide binding]; other site 570508001147 GTP/Mg2+ binding site [chemical binding]; other site 570508001148 Switch I region; other site 570508001149 G2 box; other site 570508001150 G3 box; other site 570508001151 Switch II region; other site 570508001152 G4 box; other site 570508001153 G5 box; other site 570508001154 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 570508001155 Translation-initiation factor 2; Region: IF-2; pfam11987 570508001156 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 570508001157 Ribosome-binding factor A; Region: RBFA; cl00542 570508001158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 570508001159 Sm and related proteins; Region: Sm_like; cl00259 570508001160 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 570508001161 putative oligomer interface [polypeptide binding]; other site 570508001162 putative RNA binding site [nucleotide binding]; other site 570508001163 acetyl-CoA synthetase; Provisional; Region: PRK00174 570508001164 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 570508001165 active site 570508001166 CoA binding site [chemical binding]; other site 570508001167 acyl-activating enzyme (AAE) consensus motif; other site 570508001168 AMP binding site [chemical binding]; other site 570508001169 acetate binding site [chemical binding]; other site 570508001170 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 570508001171 putative active site [active] 570508001172 putative metal binding site [ion binding]; other site 570508001173 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 570508001174 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 570508001175 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 570508001176 active site 570508001177 intermolecular recognition site; other site 570508001178 dimerization interface [polypeptide binding]; other site 570508001179 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 570508001180 DNA binding site [nucleotide binding] 570508001181 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 570508001182 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 570508001183 FHIPEP family; Region: FHIPEP; pfam00771 570508001184 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 570508001185 16S/18S rRNA binding site [nucleotide binding]; other site 570508001186 S13e-L30e interaction site [polypeptide binding]; other site 570508001187 25S rRNA binding site [nucleotide binding]; other site 570508001188 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 570508001189 O-Antigen ligase; Region: Wzy_C; pfam04932 570508001190 Dehydroquinase class II; Region: DHquinase_II; pfam01220 570508001191 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 570508001192 trimer interface [polypeptide binding]; other site 570508001193 active site 570508001194 dimer interface [polypeptide binding]; other site 570508001195 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 570508001196 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 570508001197 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 570508001198 active site 570508001199 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 570508001200 catalytic center binding site [active] 570508001201 ATP binding site [chemical binding]; other site 570508001202 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 570508001203 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 570508001204 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 570508001205 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 570508001206 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 570508001207 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 570508001208 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 570508001209 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 570508001210 DNA binding residues [nucleotide binding] 570508001211 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 570508001212 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 570508001213 flagellar motor switch protein FliY; Validated; Region: PRK08432 570508001214 flagellar motor switch protein FliN; Region: fliN; TIGR02480 570508001215 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 570508001216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 570508001217 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 570508001218 metal binding site 2 [ion binding]; metal-binding site 570508001219 putative DNA binding helix; other site 570508001220 metal binding site 1 [ion binding]; metal-binding site 570508001221 dimer interface [polypeptide binding]; other site 570508001222 structural Zn2+ binding site [ion binding]; other site 570508001223 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 570508001224 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 570508001225 Walker A motif; other site 570508001226 ATP binding site [chemical binding]; other site 570508001227 Walker B motif; other site 570508001228 arginine finger; other site 570508001229 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 570508001230 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 570508001231 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 570508001232 DNA binding residues [nucleotide binding] 570508001233 putative dimer interface [polypeptide binding]; other site 570508001234 chaperone protein DnaJ; Provisional; Region: PRK14299 570508001235 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 570508001236 HSP70 interaction site [polypeptide binding]; other site 570508001237 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 570508001238 substrate binding site [polypeptide binding]; other site 570508001239 dimer interface [polypeptide binding]; other site 570508001240 5'-3' exonuclease; Provisional; Region: PRK14976 570508001241 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 570508001242 putative active site [active] 570508001243 Helix-hairpin-helix class 2 (Pol1 family) motifs; Region: HhH2; smart00279 570508001244 DNA binding site [nucleotide binding] 570508001245 metal binding site [ion binding]; metal-binding site 570508001246 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 570508001247 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 570508001248 active site 570508001249 dimerization interface [polypeptide binding]; other site 570508001250 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 570508001251 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 570508001252 substrate binding site; other site 570508001253 dimer interface; other site 570508001254 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 570508001255 homotrimer interaction site [polypeptide binding]; other site 570508001256 zinc binding site [ion binding]; other site 570508001257 CDP-binding sites; other site 570508001258 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 570508001259 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 570508001260 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 570508001261 protein binding site [polypeptide binding]; other site 570508001262 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 570508001263 protein binding site [polypeptide binding]; other site 570508001264 S-methylmethionine transporter; Provisional; Region: PRK11387 570508001265 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 570508001266 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 570508001267 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 570508001268 putative NAD(P) binding site [chemical binding]; other site 570508001269 active site 570508001270 dihydrodipicolinate synthase; Region: dapA; TIGR00674 570508001271 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 570508001272 dimer interface [polypeptide binding]; other site 570508001273 active site 570508001274 catalytic residue [active] 570508001275 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 570508001276 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 570508001277 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 570508001278 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 570508001279 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 570508001280 quinone interaction residues [chemical binding]; other site 570508001281 active site 570508001282 catalytic residues [active] 570508001283 FMN binding site [chemical binding]; other site 570508001284 substrate binding site [chemical binding]; other site 570508001285 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 570508001286 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 570508001287 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 570508001288 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 570508001289 putative domain interface [polypeptide binding]; other site 570508001290 putative active site [active] 570508001291 catalytic site [active] 570508001292 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 570508001293 putative active site [active] 570508001294 putative domain interface [polypeptide binding]; other site 570508001295 catalytic site [active] 570508001296 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 570508001297 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 570508001298 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 570508001299 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 570508001300 Methyltransferase domain; Region: Methyltransf_26; pfam13659 570508001301 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 570508001302 active site 570508001303 catalytic residues [active] 570508001304 DNA binding site [nucleotide binding] 570508001305 Int/Topo IB signature motif; other site 570508001306 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 570508001307 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 570508001308 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 570508001309 Methyltransferase domain; Region: Methyltransf_26; pfam13659 570508001310 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 570508001311 DEAD-like helicases superfamily; Region: DEXDc; smart00487 570508001312 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 570508001313 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 570508001314 helicase superfamily c-terminal domain; Region: HELICc; smart00490 570508001315 nucleotide binding region [chemical binding]; other site 570508001316 ATP-binding site [chemical binding]; other site 570508001317 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 570508001318 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 570508001319 P-loop; other site 570508001320 Magnesium ion binding site [ion binding]; other site 570508001321 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 570508001322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 570508001323 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 570508001324 Walker A motif; other site 570508001325 ATP binding site [chemical binding]; other site 570508001326 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 570508001327 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 570508001328 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 570508001329 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 570508001330 Walker A motif; other site 570508001331 hexamer interface [polypeptide binding]; other site 570508001332 ATP binding site [chemical binding]; other site 570508001333 Walker B motif; other site 570508001334 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 570508001335 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 570508001336 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 570508001337 VirB7 interaction site; other site 570508001338 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 570508001339 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 570508001340 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 570508001341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 570508001342 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 570508001343 putative metal binding site [ion binding]; other site 570508001344 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 570508001345 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 570508001346 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 570508001347 active site 570508001348 Zn binding site [ion binding]; other site 570508001349 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 570508001350 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 570508001351 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508001352 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 570508001353 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 570508001354 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 570508001355 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 570508001356 dimer interface [polypeptide binding]; other site 570508001357 conserved gate region; other site 570508001358 putative PBP binding loops; other site 570508001359 ABC-ATPase subunit interface; other site 570508001360 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 570508001361 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 570508001362 Walker A/P-loop; other site 570508001363 ATP binding site [chemical binding]; other site 570508001364 Q-loop/lid; other site 570508001365 ABC transporter signature motif; other site 570508001366 Walker B; other site 570508001367 D-loop; other site 570508001368 H-loop/switch region; other site 570508001369 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 570508001370 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 570508001371 active site 570508001372 HIGH motif; other site 570508001373 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 570508001374 active site 570508001375 KMSKS motif; other site 570508001376 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508001377 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 570508001378 Methyltransferase domain; Region: Methyltransf_26; pfam13659 570508001379 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 570508001380 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 570508001381 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 570508001382 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 570508001383 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 570508001384 G1 box; other site 570508001385 putative GEF interaction site [polypeptide binding]; other site 570508001386 GTP/Mg2+ binding site [chemical binding]; other site 570508001387 Switch I region; other site 570508001388 G2 box; other site 570508001389 G3 box; other site 570508001390 Switch II region; other site 570508001391 G4 box; other site 570508001392 G5 box; other site 570508001393 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 570508001394 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 570508001395 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 570508001396 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 570508001397 cofactor binding site; other site 570508001398 DNA binding site [nucleotide binding] 570508001399 substrate interaction site [chemical binding]; other site 570508001400 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 570508001401 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 570508001402 putative heme binding pocket [chemical binding]; other site 570508001403 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 570508001404 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 570508001405 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 570508001406 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 570508001407 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 570508001408 Cation transport protein; Region: TrkH; cl17365 570508001409 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 570508001410 TrkA-N domain; Region: TrkA_N; pfam02254 570508001411 TrkA-C domain; Region: TrkA_C; pfam02080 570508001412 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 570508001413 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 570508001414 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 570508001415 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 570508001416 Mg++ binding site [ion binding]; other site 570508001417 putative catalytic motif [active] 570508001418 putative substrate binding site [chemical binding]; other site 570508001419 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 570508001420 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 570508001421 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 570508001422 Protein of unknown function (DUF493); Region: DUF493; pfam04359 570508001423 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 570508001424 active site 570508001425 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 570508001426 Na2 binding site [ion binding]; other site 570508001427 putative substrate binding site 1 [chemical binding]; other site 570508001428 Na binding site 1 [ion binding]; other site 570508001429 putative substrate binding site 2 [chemical binding]; other site 570508001430 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 570508001431 Na2 binding site [ion binding]; other site 570508001432 putative substrate binding site 1 [chemical binding]; other site 570508001433 Na binding site 1 [ion binding]; other site 570508001434 putative substrate binding site 2 [chemical binding]; other site 570508001435 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 570508001436 dimerization interface [polypeptide binding]; other site 570508001437 substrate binding site [chemical binding]; other site 570508001438 active site 570508001439 calcium binding site [ion binding]; other site 570508001440 DNA polymerase III, beta subunit; Region: dnan; TIGR00663 570508001441 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 570508001442 putative DNA binding surface [nucleotide binding]; other site 570508001443 dimer interface [polypeptide binding]; other site 570508001444 beta-clamp/translesion DNA polymerase binding surface; other site 570508001445 beta-clamp/clamp loader binding surface; other site 570508001446 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 570508001447 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 570508001448 Mg2+ binding site [ion binding]; other site 570508001449 G-X-G motif; other site 570508001450 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 570508001451 anchoring element; other site 570508001452 dimer interface [polypeptide binding]; other site 570508001453 ATP binding site [chemical binding]; other site 570508001454 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 570508001455 active site 570508001456 putative metal-binding site [ion binding]; other site 570508001457 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 570508001458 R.Pab1 restriction endonuclease; Region: RE_R_Pab1; pfam09522 570508001459 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 570508001460 Peptidase family M23; Region: Peptidase_M23; pfam01551 570508001461 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 570508001462 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 570508001463 dimer interface [polypeptide binding]; other site 570508001464 ADP-ribose binding site [chemical binding]; other site 570508001465 active site 570508001466 nudix motif; other site 570508001467 metal binding site [ion binding]; metal-binding site 570508001468 FAD binding domain; Region: FAD_binding_4; pfam01565 570508001469 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 570508001470 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 570508001471 dihydrodipicolinate reductase; Region: dapB; TIGR00036 570508001472 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 570508001473 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 570508001474 glutamine synthetase, type I; Region: GlnA; TIGR00653 570508001475 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 570508001476 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 570508001477 Uncharacterized conserved protein [Function unknown]; Region: COG1479 570508001478 Protein of unknown function DUF262; Region: DUF262; pfam03235 570508001479 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 570508001480 Uncharacterized conserved protein [Function unknown]; Region: COG3586 570508001481 ribosomal protein L9; Region: L9; TIGR00158 570508001482 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 570508001483 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 570508001484 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 570508001485 active site 570508001486 HslU subunit interaction site [polypeptide binding]; other site 570508001487 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 570508001488 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 570508001489 Walker A motif; other site 570508001490 ATP binding site [chemical binding]; other site 570508001491 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 570508001492 Walker B motif; other site 570508001493 arginine finger; other site 570508001494 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 570508001495 GTPase [General function prediction only]; Region: Era; COG1159 570508001496 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 570508001497 G1 box; other site 570508001498 GTP/Mg2+ binding site [chemical binding]; other site 570508001499 Switch I region; other site 570508001500 G2 box; other site 570508001501 Switch II region; other site 570508001502 G3 box; other site 570508001503 G4 box; other site 570508001504 G5 box; other site 570508001505 KH domain; Region: KH_2; pfam07650 570508001506 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 570508001507 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 570508001508 Sel1-like repeats; Region: SEL1; smart00671 570508001509 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 570508001510 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 570508001511 Walker A motif; other site 570508001512 ATP binding site [chemical binding]; other site 570508001513 Walker B motif; other site 570508001514 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 570508001515 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 570508001516 ATP binding site [chemical binding]; other site 570508001517 Walker A motif; other site 570508001518 hexamer interface [polypeptide binding]; other site 570508001519 Walker B motif; other site 570508001520 CagZ; Region: CagZ; pfam09053 570508001521 DC-EC Repeat; Region: CagY_M; pfam07337 570508001522 DC-EC Repeat; Region: CagY_M; pfam07337 570508001523 DC-EC Repeat; Region: CagY_M; pfam07337 570508001524 DC-EC Repeat; Region: CagY_M; pfam07337 570508001525 DC-EC Repeat; Region: CagY_M; pfam07337 570508001526 DC-EC Repeat; Region: CagY_M; pfam07337 570508001527 DC-EC Repeat; Region: CagY_M; pfam07337 570508001528 DC-EC Repeat; Region: CagY_M; pfam07337 570508001529 DC-EC Repeat; Region: CagY_M; pfam07337 570508001530 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 570508001531 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 570508001532 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 570508001533 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 570508001534 VirB7 interaction site; other site 570508001535 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 570508001536 Cag pathogenicity island protein Cag12; Region: Cag12; pfam13117 570508001537 prolyl-tRNA synthetase; Provisional; Region: PRK08661 570508001538 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 570508001539 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 570508001540 CagA exotoxin; Region: CagA; pfam03507 570508001541 CagA exotoxin; Region: CagA; pfam03507 570508001542 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 570508001543 transcription termination factor Rho; Provisional; Region: rho; PRK09376 570508001544 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 570508001545 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 570508001546 RNA binding site [nucleotide binding]; other site 570508001547 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 570508001548 multimer interface [polypeptide binding]; other site 570508001549 Walker A motif; other site 570508001550 ATP binding site [chemical binding]; other site 570508001551 Walker B motif; other site 570508001552 Ribosomal protein L31; Region: Ribosomal_L31; pfam01197 570508001553 Predicted methyltransferases [General function prediction only]; Region: COG0313 570508001554 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 570508001555 putative SAM binding site [chemical binding]; other site 570508001556 putative homodimer interface [polypeptide binding]; other site 570508001557 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 570508001558 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 570508001559 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 570508001560 acetyl-CoA carboxylase, carboxyl transferase, alpha subunit; Region: accA; TIGR00513 570508001561 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 570508001562 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 570508001563 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 570508001564 dimer interface [polypeptide binding]; other site 570508001565 active site 570508001566 acyl carrier protein; Provisional; Region: acpP; PRK00982 570508001567 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 570508001568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 570508001569 NAD(P) binding site [chemical binding]; other site 570508001570 active site 570508001571 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 570508001572 Predicted membrane protein [Function unknown]; Region: COG3059 570508001573 diaminopimelate epimerase; Region: DapF; TIGR00652 570508001574 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 570508001575 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 570508001576 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 570508001577 Domain of unknown function DUF20; Region: UPF0118; pfam01594 570508001578 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 570508001579 GTP-binding protein YchF; Reviewed; Region: PRK09601 570508001580 YchF GTPase; Region: YchF; cd01900 570508001581 G1 box; other site 570508001582 GTP/Mg2+ binding site [chemical binding]; other site 570508001583 Switch I region; other site 570508001584 G2 box; other site 570508001585 Switch II region; other site 570508001586 G3 box; other site 570508001587 G4 box; other site 570508001588 G5 box; other site 570508001589 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 570508001590 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 570508001591 multifunctional aminopeptidase A; Provisional; Region: PRK00913 570508001592 interface (dimer of trimers) [polypeptide binding]; other site 570508001593 Substrate-binding/catalytic site; other site 570508001594 Zn-binding sites [ion binding]; other site 570508001595 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 570508001596 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 570508001597 active site 570508001598 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 570508001599 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 570508001600 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 570508001601 Peptidase family M50; Region: Peptidase_M50; pfam02163 570508001602 active site 570508001603 putative substrate binding region [chemical binding]; other site 570508001604 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 570508001605 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 570508001606 Catalytic site [active] 570508001607 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 570508001608 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 570508001609 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 570508001610 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 570508001611 homodimer interface [polypeptide binding]; other site 570508001612 NADP binding site [chemical binding]; other site 570508001613 substrate binding site [chemical binding]; other site 570508001614 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 570508001615 Sulfatase; Region: Sulfatase; pfam00884 570508001616 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 570508001617 BNR repeat-like domain; Region: BNR_2; pfam13088 570508001618 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 570508001619 active site 570508001620 substrate binding pocket [chemical binding]; other site 570508001621 dimer interface [polypeptide binding]; other site 570508001622 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 570508001623 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 570508001624 flagellar motor switch protein; Validated; Region: PRK08433 570508001625 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 570508001626 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 570508001627 minor groove reading motif; other site 570508001628 helix-hairpin-helix signature motif; other site 570508001629 substrate binding pocket [chemical binding]; other site 570508001630 active site 570508001631 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 570508001632 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 570508001633 Protein of unknown function; Region: DUF3971; pfam13116 570508001634 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 570508001635 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 570508001636 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 570508001637 dimerization interface [polypeptide binding]; other site 570508001638 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 570508001639 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 570508001640 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 570508001641 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 570508001642 dimer interface [polypeptide binding]; other site 570508001643 PYR/PP interface [polypeptide binding]; other site 570508001644 TPP binding site [chemical binding]; other site 570508001645 substrate binding site [chemical binding]; other site 570508001646 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 570508001647 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 570508001648 TPP-binding site [chemical binding]; other site 570508001649 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 570508001650 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 570508001651 Restriction endonuclease [Defense mechanisms]; Region: COG3587 570508001652 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 570508001653 ATP binding site [chemical binding]; other site 570508001654 putative Mg++ binding site [ion binding]; other site 570508001655 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 570508001656 tumor necrosis factor alpha-inducing protein; Reviewed; Region: PRK12303 570508001657 Transglycosylase; Region: Transgly; pfam00912 570508001658 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 570508001659 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 570508001660 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 570508001661 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 570508001662 catalytic residue [active] 570508001663 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 570508001664 dimer interface [polypeptide binding]; other site 570508001665 putative CheW interface [polypeptide binding]; other site 570508001666 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 570508001667 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 570508001668 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 570508001669 Walker A/P-loop; other site 570508001670 ATP binding site [chemical binding]; other site 570508001671 Q-loop/lid; other site 570508001672 ABC transporter signature motif; other site 570508001673 Walker B; other site 570508001674 D-loop; other site 570508001675 H-loop/switch region; other site 570508001676 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 570508001677 flagellin A; Reviewed; Region: PRK12584 570508001678 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 570508001679 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 570508001680 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 570508001681 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 570508001682 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 570508001683 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 570508001684 minor groove reading motif; other site 570508001685 helix-hairpin-helix signature motif; other site 570508001686 active site 570508001687 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 570508001688 substrate binding site [chemical binding]; other site 570508001689 active site 570508001690 Outer membrane efflux protein; Region: OEP; pfam02321 570508001691 Outer membrane efflux protein; Region: OEP; pfam02321 570508001692 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 570508001693 HlyD family secretion protein; Region: HlyD_3; pfam13437 570508001694 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 570508001695 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508001696 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 570508001697 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 570508001698 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 570508001699 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 570508001700 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 570508001701 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 570508001702 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 570508001703 Autotransporter beta-domain; Region: Autotransporter; pfam03797 570508001704 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 570508001705 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 570508001706 ABC transporter signature motif; other site 570508001707 Walker B; other site 570508001708 D-loop; other site 570508001709 H-loop/switch region; other site 570508001710 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 570508001711 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 570508001712 G1 box; other site 570508001713 Walker A/P-loop; other site 570508001714 GTP/Mg2+ binding site [chemical binding]; other site 570508001715 ATP binding site [chemical binding]; other site 570508001716 G2 box; other site 570508001717 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 570508001718 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 570508001719 nucleotide binding pocket [chemical binding]; other site 570508001720 K-X-D-G motif; other site 570508001721 catalytic site [active] 570508001722 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 570508001723 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 570508001724 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 570508001725 Dimer interface [polypeptide binding]; other site 570508001726 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 570508001727 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 570508001728 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 570508001729 active site 570508001730 phosphorylation site [posttranslational modification] 570508001731 intermolecular recognition site; other site 570508001732 dimerization interface [polypeptide binding]; other site 570508001733 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 570508001734 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 570508001735 dimer interface [polypeptide binding]; other site 570508001736 anticodon binding site; other site 570508001737 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 570508001738 homodimer interface [polypeptide binding]; other site 570508001739 motif 1; other site 570508001740 active site 570508001741 motif 2; other site 570508001742 GAD domain; Region: GAD; pfam02938 570508001743 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 570508001744 active site 570508001745 motif 3; other site 570508001746 adenylate kinase; Reviewed; Region: adk; PRK00279 570508001747 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 570508001748 AMP-binding site [chemical binding]; other site 570508001749 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 570508001750 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 570508001751 Glycosyltransferase involved in LPS biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG3306 570508001752 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 570508001753 dimer interface [polypeptide binding]; other site 570508001754 substrate binding site [chemical binding]; other site 570508001755 metal binding sites [ion binding]; metal-binding site 570508001756 hypothetical protein; Provisional; Region: PRK08444 570508001757 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 570508001758 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; cl00217 570508001759 MutS2 family protein; Region: mutS2; TIGR01069 570508001760 ATPase domain of DNA mismatch repair MUTS family; Region: MUTSac; smart00534 570508001761 Walker A/P-loop; other site 570508001762 ATP binding site [chemical binding]; other site 570508001763 Q-loop/lid; other site 570508001764 ABC transporter signature motif; other site 570508001765 Walker B; other site 570508001766 D-loop; other site 570508001767 H-loop/switch region; other site 570508001768 Smr domain; Region: Smr; pfam01713 570508001769 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 570508001770 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 570508001771 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 570508001772 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 570508001773 hypothetical protein; Provisional; Region: PRK05839 570508001774 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 570508001775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 570508001776 homodimer interface [polypeptide binding]; other site 570508001777 catalytic residue [active] 570508001778 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 570508001779 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 570508001780 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 570508001781 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 570508001782 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 570508001783 putative trimer interface [polypeptide binding]; other site 570508001784 putative CoA binding site [chemical binding]; other site 570508001785 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 570508001786 Sel1-like repeats; Region: SEL1; smart00671 570508001787 Sel1-like repeats; Region: SEL1; smart00671 570508001788 Sel1 repeat; Region: Sel1; cl02723 570508001789 Sel1-like repeats; Region: SEL1; smart00671 570508001790 Uncharacterized conserved protein [Function unknown]; Region: COG1479 570508001791 Protein of unknown function DUF262; Region: DUF262; pfam03235 570508001792 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 570508001793 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 570508001794 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 570508001795 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 570508001796 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 570508001797 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 570508001798 Ni,Fe-hydrogenase I cytochrome b subunit [Energy production and conversion]; Region: HyaC; COG1969 570508001799 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 570508001800 nickel binding site [ion binding]; other site 570508001801 putative substrate-binding site; other site 570508001802 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 570508001803 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508001804 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 570508001805 Ligand Binding Site [chemical binding]; other site 570508001806 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 570508001807 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 570508001808 active site 570508001809 NTP binding site [chemical binding]; other site 570508001810 metal binding triad [ion binding]; metal-binding site 570508001811 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 570508001812 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 570508001813 putative hydrophobic ligand binding site [chemical binding]; other site 570508001814 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 570508001815 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 570508001816 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 570508001817 dimer interface [polypeptide binding]; other site 570508001818 FMN binding site [chemical binding]; other site 570508001819 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 570508001820 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 570508001821 active site 570508001822 HIGH motif; other site 570508001823 nucleotide binding site [chemical binding]; other site 570508001824 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 570508001825 active site 570508001826 KMSKS motif; other site 570508001827 YGGT family; Region: YGGT; pfam02325 570508001828 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 570508001829 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 570508001830 N-acetyl-D-glucosamine binding site [chemical binding]; other site 570508001831 catalytic residue [active] 570508001832 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 570508001833 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 570508001834 active site 570508001835 tetramer interface; other site 570508001836 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 570508001837 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 570508001838 hinge; other site 570508001839 active site 570508001840 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 570508001841 Aspartase; Region: Aspartase; cd01357 570508001842 active sites [active] 570508001843 tetramer interface [polypeptide binding]; other site 570508001844 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_2; cd10034 570508001845 putative uracil binding site [chemical binding]; other site 570508001846 putative active site [active] 570508001847 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 570508001848 phosphoserine phosphatase SerB; Region: serB; TIGR00338 570508001849 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 570508001850 motif II; other site 570508001851 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 570508001852 Ferritin-like domain; Region: Ferritin; pfam00210 570508001853 ferroxidase diiron center [ion binding]; other site 570508001854 hypothetical protein; Provisional; Region: PRK08444 570508001855 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 570508001856 FeS/SAM binding site; other site 570508001857 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 570508001858 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 570508001859 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 570508001860 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 570508001861 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 570508001862 Surface antigen; Region: Bac_surface_Ag; pfam01103 570508001863 hypothetical protein; Provisional; Region: PRK08445 570508001864 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 570508001865 FeS/SAM binding site; other site 570508001866 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 570508001867 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 570508001868 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 570508001869 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 570508001870 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 570508001871 GatB domain; Region: GatB_Yqey; smart00845 570508001872 SurA N-terminal domain; Region: SurA_N; pfam09312 570508001873 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 570508001874 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]; Region: COG1439 570508001875 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 570508001876 RNA/DNA hybrid binding site [nucleotide binding]; other site 570508001877 active site 570508001878 ribonuclease III; Reviewed; Region: rnc; PRK00102 570508001879 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 570508001880 dimerization interface [polypeptide binding]; other site 570508001881 active site 570508001882 metal binding site [ion binding]; metal-binding site 570508001883 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 570508001884 dsRNA binding site [nucleotide binding]; other site 570508001885 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 570508001886 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 570508001887 Tetramer interface [polypeptide binding]; other site 570508001888 active site 570508001889 FMN-binding site [chemical binding]; other site 570508001890 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 570508001891 oxygen-independent coproporphyrinogen III oxidase; Region: hemN; TIGR00538 570508001892 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 570508001893 FeS/SAM binding site; other site 570508001894 HemN C-terminal domain; Region: HemN_C; pfam06969 570508001895 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 570508001896 Cysteine-rich domain; Region: CCG; pfam02754 570508001897 Cysteine-rich domain; Region: CCG; pfam02754 570508001898 Predicted helicase [General function prediction only]; Region: COG4889 570508001899 Restriction endonuclease; Region: Mrr_cat; pfam04471 570508001900 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 570508001901 ATP binding site [chemical binding]; other site 570508001902 putative Mg++ binding site [ion binding]; other site 570508001903 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 570508001904 nucleotide binding region [chemical binding]; other site 570508001905 ATP-binding site [chemical binding]; other site 570508001906 Predicted helicase [General function prediction only]; Region: COG4889 570508001907 Predicted helicase [General function prediction only]; Region: COG4889 570508001908 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508001909 aspartate aminotransferase; Provisional; Region: PRK05764 570508001910 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 570508001911 pyridoxal 5'-phosphate binding site [chemical binding]; other site 570508001912 homodimer interface [polypeptide binding]; other site 570508001913 catalytic residue [active] 570508001914 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 570508001915 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 570508001916 active site 570508001917 DNA binding site [nucleotide binding] 570508001918 Int/Topo IB signature motif; other site 570508001919 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 570508001920 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 570508001921 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 570508001922 DNA binding site [nucleotide binding] 570508001923 active site 570508001924 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 570508001925 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 570508001926 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 570508001927 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 570508001928 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 570508001929 ATP cone domain; Region: ATP-cone; pfam03477 570508001930 Class I ribonucleotide reductase; Region: RNR_I; cd01679 570508001931 active site 570508001932 dimer interface [polypeptide binding]; other site 570508001933 catalytic residues [active] 570508001934 effector binding site; other site 570508001935 R2 peptide binding site; other site 570508001936 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 570508001937 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 570508001938 Substrate binding site; other site 570508001939 Mg++ binding site; other site 570508001940 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 570508001941 active site 570508001942 substrate binding site [chemical binding]; other site 570508001943 CoA binding site [chemical binding]; other site 570508001944 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 570508001945 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 570508001946 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 570508001947 N-terminal plug; other site 570508001948 ligand-binding site [chemical binding]; other site 570508001949 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 570508001950 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 570508001951 G1 box; other site 570508001952 GTP/Mg2+ binding site [chemical binding]; other site 570508001953 Switch I region; other site 570508001954 G2 box; other site 570508001955 G3 box; other site 570508001956 Switch II region; other site 570508001957 G4 box; other site 570508001958 G5 box; other site 570508001959 Nucleoside recognition; Region: Gate; pfam07670 570508001960 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 570508001961 Nucleoside recognition; Region: Gate; pfam07670 570508001962 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 570508001963 active site 570508001964 catalytic site [active] 570508001965 substrate binding site [chemical binding]; other site 570508001966 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 570508001967 putative acyltransferase; Provisional; Region: PRK05790 570508001968 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 570508001969 dimer interface [polypeptide binding]; other site 570508001970 active site 570508001971 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 570508001972 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 570508001973 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 570508001974 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3528 570508001975 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 570508001976 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 570508001977 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 570508001978 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 570508001979 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 570508001980 DNA gyrase subunit A; Validated; Region: PRK05560 570508001981 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 570508001982 CAP-like domain; other site 570508001983 active site 570508001984 primary dimer interface [polypeptide binding]; other site 570508001985 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 570508001986 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 570508001987 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 570508001988 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 570508001989 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 570508001990 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 570508001991 Response regulator receiver domain; Region: Response_reg; pfam00072 570508001992 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 570508001993 active site 570508001994 phosphorylation site [posttranslational modification] 570508001995 intermolecular recognition site; other site 570508001996 dimerization interface [polypeptide binding]; other site 570508001997 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 570508001998 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 570508001999 Walker A motif; other site 570508002000 ATP binding site [chemical binding]; other site 570508002001 Walker B motif; other site 570508002002 arginine finger; other site 570508002003 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 570508002004 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 570508002005 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 570508002006 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 570508002007 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508002008 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 570508002009 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 570508002010 Uncharacterized conserved protein [Function unknown]; Region: COG1912 570508002011 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508002012 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 570508002013 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 570508002014 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 570508002015 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 570508002016 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 570508002017 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 570508002018 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 570508002019 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 570508002020 Walker A/P-loop; other site 570508002021 ATP binding site [chemical binding]; other site 570508002022 Q-loop/lid; other site 570508002023 ABC transporter signature motif; other site 570508002024 Walker B; other site 570508002025 D-loop; other site 570508002026 H-loop/switch region; other site 570508002027 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 570508002028 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 570508002029 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 570508002030 Walker A motif; other site 570508002031 ATP binding site [chemical binding]; other site 570508002032 Walker B motif; other site 570508002033 arginine finger; other site 570508002034 Lysine efflux permease [General function prediction only]; Region: COG1279 570508002035 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 570508002036 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 570508002037 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508002038 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 570508002039 active site 570508002040 homodimer interface [polypeptide binding]; other site 570508002041 homotetramer interface [polypeptide binding]; other site 570508002042 anaerobic c4-dicarboxylate membrane transporter family protein; Region: Dcu; TIGR00770 570508002043 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 570508002044 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508002045 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 570508002046 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 570508002047 FMN binding site [chemical binding]; other site 570508002048 active site 570508002049 catalytic residues [active] 570508002050 substrate binding site [chemical binding]; other site 570508002051 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 570508002052 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 570508002053 Ligand Binding Site [chemical binding]; other site 570508002054 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 570508002055 G1 box; other site 570508002056 GTP/Mg2+ binding site [chemical binding]; other site 570508002057 G2 box; other site 570508002058 Switch I region; other site 570508002059 G3 box; other site 570508002060 Switch II region; other site 570508002061 G4 box; other site 570508002062 multidrug resistance protein (mdr1); Provisional; Region: PTZ00265 570508002063 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 570508002064 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 570508002065 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 570508002066 FeS/SAM binding site; other site 570508002067 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 570508002068 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 570508002069 active site 570508002070 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 570508002071 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 570508002072 catalytic residue [active] 570508002073 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 570508002074 tetramer interfaces [polypeptide binding]; other site 570508002075 binuclear metal-binding site [ion binding]; other site 570508002076 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 570508002077 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 570508002078 ATP-grasp domain; Region: ATP-grasp_4; cl17255 570508002079 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 570508002080 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 570508002081 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 570508002082 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 570508002083 nucleotide binding site/active site [active] 570508002084 HIT family signature motif; other site 570508002085 catalytic residue [active] 570508002086 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 570508002087 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 570508002088 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 570508002089 active site 570508002090 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 570508002091 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 570508002092 Predicted GTPase [General function prediction only]; Region: COG3596 570508002093 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 570508002094 G1 box; other site 570508002095 GTP/Mg2+ binding site [chemical binding]; other site 570508002096 G2 box; other site 570508002097 Switch I region; other site 570508002098 G3 box; other site 570508002099 Switch II region; other site 570508002100 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 570508002101 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 570508002102 RNA binding surface [nucleotide binding]; other site 570508002103 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 570508002104 active site 570508002105 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 570508002106 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 570508002107 Interdomain contacts; other site 570508002108 Cytokine receptor motif; other site 570508002109 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 570508002110 Interdomain contacts; other site 570508002111 Cytokine receptor motif; other site 570508002112 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 570508002113 Interdomain contacts; other site 570508002114 Cytokine receptor motif; other site 570508002115 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 570508002116 S-adenosylmethionine binding site [chemical binding]; other site 570508002117 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 570508002118 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 570508002119 Walker A/P-loop; other site 570508002120 ATP binding site [chemical binding]; other site 570508002121 Q-loop/lid; other site 570508002122 ABC transporter signature motif; other site 570508002123 Walker B; other site 570508002124 D-loop; other site 570508002125 H-loop/switch region; other site 570508002126 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 570508002127 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 570508002128 Peptidase family M23; Region: Peptidase_M23; pfam01551 570508002129 flagellar protein FlaG; Provisional; Region: PRK08452 570508002130 flagellar capping protein; Validated; Region: fliD; PRK08453 570508002131 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 570508002132 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 570508002133 flagellar biosynthetic protein FliS; Region: fliS; TIGR00208 570508002134 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 570508002135 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 570508002136 putative ATP binding site [chemical binding]; other site 570508002137 putative substrate interface [chemical binding]; other site 570508002138 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 570508002139 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 570508002140 putative active site; other site 570508002141 catalytic triad [active] 570508002142 putative dimer interface [polypeptide binding]; other site 570508002143 Predicted permease [General function prediction only]; Region: COG2056 570508002144 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 570508002145 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 570508002146 putative efflux protein, MATE family; Region: matE; TIGR00797 570508002147 phosphodiesterase; Provisional; Region: PRK12704 570508002148 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 570508002149 nucleic acid binding region [nucleotide binding]; other site 570508002150 G-X-X-G motif; other site 570508002151 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 570508002152 Zn2+ binding site [ion binding]; other site 570508002153 Mg2+ binding site [ion binding]; other site 570508002154 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 570508002155 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 570508002156 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 570508002157 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 570508002158 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 570508002159 FeS/SAM binding site; other site 570508002160 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 570508002161 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 570508002162 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 570508002163 GTP binding site; other site 570508002164 flagellar biosynthetic protein FlhB; Region: flhB; TIGR00328 570508002165 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 570508002166 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 570508002167 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 570508002168 active site 570508002169 metal binding site [ion binding]; metal-binding site 570508002170 Nitronate monooxygenase; Region: NMO; pfam03060 570508002171 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 570508002172 FMN binding site [chemical binding]; other site 570508002173 substrate binding site [chemical binding]; other site 570508002174 putative catalytic residue [active] 570508002175 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 570508002176 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 570508002177 active site 570508002178 HIGH motif; other site 570508002179 dimer interface [polypeptide binding]; other site 570508002180 KMSKS motif; other site 570508002181 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 570508002182 RNA binding surface [nucleotide binding]; other site 570508002183 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 570508002184 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 570508002185 Zn2+ binding site [ion binding]; other site 570508002186 Mg2+ binding site [ion binding]; other site 570508002187 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 570508002188 synthetase active site [active] 570508002189 NTP binding site [chemical binding]; other site 570508002190 metal binding site [ion binding]; metal-binding site 570508002191 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 570508002192 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 570508002193 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 570508002194 putative nucleotide binding site [chemical binding]; other site 570508002195 uridine monophosphate binding site [chemical binding]; other site 570508002196 homohexameric interface [polypeptide binding]; other site 570508002197 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 570508002198 aconitate hydratase 2; Region: acnB; TIGR00117 570508002199 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 570508002200 substrate binding site [chemical binding]; other site 570508002201 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 570508002202 substrate binding site [chemical binding]; other site 570508002203 ligand binding site [chemical binding]; other site 570508002204 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 570508002205 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 570508002206 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 570508002207 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 570508002208 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 570508002209 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 570508002210 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 570508002211 nucleotide binding region [chemical binding]; other site 570508002212 ATP-binding site [chemical binding]; other site 570508002213 SEC-C motif; Region: SEC-C; pfam02810 570508002214 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 570508002215 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 570508002216 FtsX-like permease family; Region: FtsX; pfam02687 570508002217 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 570508002218 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 570508002219 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 570508002220 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 570508002221 Heavy-metal-associated domain; Region: HMA; pfam00403 570508002222 metal-binding site [ion binding] 570508002223 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 570508002224 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 570508002225 Soluble P-type ATPase [General function prediction only]; Region: COG4087 570508002226 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 570508002227 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 570508002228 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 570508002229 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 570508002230 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 570508002231 active site 570508002232 catalytic residues [active] 570508002233 metal binding site [ion binding]; metal-binding site 570508002234 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 570508002235 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 570508002236 oligomer interface [polypeptide binding]; other site 570508002237 active site residues [active] 570508002238 trigger factor; Provisional; Region: tig; PRK01490 570508002239 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 570508002240 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 570508002241 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508002242 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 570508002243 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 570508002244 trimer interface [polypeptide binding]; other site 570508002245 dimer interface [polypeptide binding]; other site 570508002246 putative active site [active] 570508002247 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 570508002248 MPT binding site; other site 570508002249 trimer interface [polypeptide binding]; other site 570508002250 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 570508002251 MoaE homodimer interface [polypeptide binding]; other site 570508002252 MoaD interaction [polypeptide binding]; other site 570508002253 active site residues [active] 570508002254 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 570508002255 dimerization interface [polypeptide binding]; other site 570508002256 active site 570508002257 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 570508002258 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 570508002259 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: ribB; TIGR00506 570508002260 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 570508002261 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 570508002262 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 570508002263 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 570508002264 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 570508002265 N-terminal plug; other site 570508002266 ligand-binding site [chemical binding]; other site 570508002267 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 570508002268 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 570508002269 RNA methyltransferase, RsmD family; Region: TIGR00095 570508002270 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 570508002271 Uncharacterized conserved protein [Function unknown]; Region: COG1565 570508002272 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 570508002273 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 570508002274 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 570508002275 ATP binding site [chemical binding]; other site 570508002276 substrate interface [chemical binding]; other site 570508002277 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 570508002278 flagellar motor protein MotA; Validated; Region: PRK08456 570508002279 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 570508002280 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 570508002281 ligand binding site [chemical binding]; other site 570508002282 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 570508002283 dimer interface [polypeptide binding]; other site 570508002284 conserved gate region; other site 570508002285 ABC-ATPase subunit interface; other site 570508002286 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 570508002287 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 570508002288 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 570508002289 Walker A/P-loop; other site 570508002290 ATP binding site [chemical binding]; other site 570508002291 Q-loop/lid; other site 570508002292 ABC transporter signature motif; other site 570508002293 Walker B; other site 570508002294 D-loop; other site 570508002295 H-loop/switch region; other site 570508002296 excinuclease ABC, C subunit; Region: uvrC; TIGR00194 570508002297 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 570508002298 GIY-YIG motif/motif A; other site 570508002299 active site 570508002300 catalytic site [active] 570508002301 putative DNA binding site [nucleotide binding]; other site 570508002302 metal binding site [ion binding]; metal-binding site 570508002303 UvrB/uvrC motif; Region: UVR; pfam02151 570508002304 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 570508002305 homoserine dehydrogenase; Provisional; Region: PRK06349 570508002306 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 570508002307 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 570508002308 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 570508002309 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 570508002310 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 570508002311 catalytic residues [active] 570508002312 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 570508002313 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 570508002314 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 570508002315 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 570508002316 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 570508002317 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 570508002318 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 570508002319 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 570508002320 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 570508002321 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 570508002322 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 570508002323 active site 570508002324 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, A subunit; Region: gatA; TIGR00132 570508002325 indole acetimide hydrolase; Validated; Region: PRK07488 570508002326 dephospho-CoA kinase; Region: TIGR00152 570508002327 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 570508002328 CoA-binding site [chemical binding]; other site 570508002329 ATP-binding [chemical binding]; other site 570508002330 spermidine synthase; Provisional; Region: speE; PRK00536 570508002331 spermidine synthase; Provisional; Region: PRK00811 570508002332 GTP-binding protein Der; Reviewed; Region: PRK00093 570508002333 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 570508002334 G1 box; other site 570508002335 GTP/Mg2+ binding site [chemical binding]; other site 570508002336 Switch I region; other site 570508002337 G2 box; other site 570508002338 Switch II region; other site 570508002339 G3 box; other site 570508002340 G4 box; other site 570508002341 G5 box; other site 570508002342 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 570508002343 G1 box; other site 570508002344 GTP/Mg2+ binding site [chemical binding]; other site 570508002345 Switch I region; other site 570508002346 G2 box; other site 570508002347 G3 box; other site 570508002348 Switch II region; other site 570508002349 G4 box; other site 570508002350 G5 box; other site 570508002351 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 570508002352 IHF dimer interface [polypeptide binding]; other site 570508002353 IHF - DNA interface [nucleotide binding]; other site 570508002354 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 570508002355 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 570508002356 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 570508002357 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 570508002358 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 570508002359 NAD(P) binding site [chemical binding]; other site 570508002360 homodimer interface [polypeptide binding]; other site 570508002361 substrate binding site [chemical binding]; other site 570508002362 active site 570508002363 phosphopantothenoylcysteine decarboxylase / phosphopantothenate--cysteine ligase; Region: coaBC_dfp; TIGR00521 570508002364 Flavoprotein; Region: Flavoprotein; pfam02441 570508002365 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 570508002366 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 570508002367 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 570508002368 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 570508002369 HsdM N-terminal domain; Region: HsdM_N; pfam12161 570508002370 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 570508002371 S-adenosylmethionine binding site [chemical binding]; other site 570508002372 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 570508002373 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 570508002374 active site 570508002375 Protein of unknown function (DUF511); Region: DUF511; cl01114 570508002376 Protein of unknown function (DUF511); Region: DUF511; cl01114 570508002377 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 570508002378 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 570508002379 Walker A/P-loop; other site 570508002380 ATP binding site [chemical binding]; other site 570508002381 Q-loop/lid; other site 570508002382 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 570508002383 ABC transporter; Region: ABC_tran_2; pfam12848 570508002384 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 570508002385 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 570508002386 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 570508002387 active site 570508002388 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 570508002389 dimer interface [polypeptide binding]; other site 570508002390 active site 570508002391 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 570508002392 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 570508002393 putative ribose interaction site [chemical binding]; other site 570508002394 putative ADP binding site [chemical binding]; other site 570508002395 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 570508002396 active site 570508002397 nucleotide binding site [chemical binding]; other site 570508002398 HIGH motif; other site 570508002399 KMSKS motif; other site 570508002400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 570508002401 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 570508002402 NAD(P) binding site [chemical binding]; other site 570508002403 active site 570508002404 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 570508002405 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 570508002406 active site 570508002407 motif I; other site 570508002408 motif II; other site 570508002409 Uncharacterized conserved protein [Function unknown]; Region: COG2836 570508002410 pantothenate kinase; Reviewed; Region: PRK13333 570508002411 PQQ-like domain; Region: PQQ_2; pfam13360 570508002412 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 570508002413 trimer interface [polypeptide binding]; other site 570508002414 active site 570508002415 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 570508002416 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 570508002417 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 570508002418 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 570508002419 lipid-A-disaccharide synthase; Region: lpxB; TIGR00215 570508002420 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK00564 570508002421 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 570508002422 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 570508002423 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 570508002424 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 570508002425 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 570508002426 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 570508002427 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 570508002428 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 570508002429 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 570508002430 PhnA protein; Region: PhnA; pfam03831 570508002431 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 570508002432 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 570508002433 tetramer interface [polypeptide binding]; other site 570508002434 heme binding pocket [chemical binding]; other site 570508002435 NADPH binding site [chemical binding]; other site 570508002436 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 570508002437 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 570508002438 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 570508002439 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 570508002440 active site 570508002441 putative DNA-binding cleft [nucleotide binding]; other site 570508002442 dimer interface [polypeptide binding]; other site 570508002443 Uncharacterized conserved protein [Function unknown]; Region: COG1432 570508002444 LabA_like proteins; Region: LabA_like; cd06167 570508002445 putative metal binding site [ion binding]; other site 570508002446 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 570508002447 Holliday junction DNA helicase, RuvA subunit; Region: ruvA; TIGR00084 570508002448 RuvA N terminal domain; Region: RuvA_N; pfam01330 570508002449 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 570508002450 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 570508002451 MviN-like protein; Region: MVIN; pfam03023 570508002452 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 570508002453 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 570508002454 active site 570508002455 HIGH motif; other site 570508002456 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 570508002457 KMSKS motif; other site 570508002458 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 570508002459 tRNA binding surface [nucleotide binding]; other site 570508002460 anticodon binding site; other site 570508002461 Vacuolating cyotoxin; Region: VacA; pfam02691 570508002462 Autotransporter beta-domain; Region: Autotransporter; pfam03797 570508002463 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 570508002464 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 570508002465 Walker A/P-loop; other site 570508002466 ATP binding site [chemical binding]; other site 570508002467 Q-loop/lid; other site 570508002468 ABC transporter signature motif; other site 570508002469 Walker B; other site 570508002470 D-loop; other site 570508002471 H-loop/switch region; other site 570508002472 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 570508002473 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 570508002474 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 570508002475 ABC-ATPase subunit interface; other site 570508002476 dimer interface [polypeptide binding]; other site 570508002477 putative PBP binding regions; other site 570508002478 short chain dehydrogenase; Validated; Region: PRK06182 570508002479 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 570508002480 NADP binding site [chemical binding]; other site 570508002481 active site 570508002482 steroid binding site; other site 570508002483 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 570508002484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 570508002485 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508002486 Hydrogenase formation hypA family; Region: HypD; cl12072 570508002487 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 570508002488 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 570508002489 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 570508002490 hydrogenase accessory protein HypB; Region: hypB; TIGR00073 570508002491 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 570508002492 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 570508002493 Acetokinase family; Region: Acetate_kinase; cl17229 570508002494 Acetokinase family; Region: Acetate_kinase; cl17229 570508002495 Acetokinase family; Region: Acetate_kinase; cl17229 570508002496 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 570508002497 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 570508002498 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 570508002499 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 570508002500 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 570508002501 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 570508002502 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 570508002503 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 570508002504 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 570508002505 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 570508002506 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 570508002507 S-adenosylmethionine binding site [chemical binding]; other site 570508002508 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 570508002509 Part of AAA domain; Region: AAA_19; pfam13245 570508002510 Family description; Region: UvrD_C_2; pfam13538 570508002511 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508002512 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508002513 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 570508002514 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 570508002515 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 570508002516 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 570508002517 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 570508002518 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 570508002519 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 570508002520 ATP-grasp domain; Region: ATP-grasp_4; cl17255 570508002521 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 570508002522 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 570508002523 ATP-grasp domain; Region: ATP-grasp_4; cl17255 570508002524 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 570508002525 IMP binding site; other site 570508002526 dimer interface [polypeptide binding]; other site 570508002527 interdomain contacts; other site 570508002528 partial ornithine binding site; other site 570508002529 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 570508002530 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 570508002531 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 570508002532 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 570508002533 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 570508002534 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 570508002535 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 570508002536 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 570508002537 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 570508002538 Autotransporter beta-domain; Region: Autotransporter; pfam03797 570508002539 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508002540 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 570508002541 active site 1 [active] 570508002542 dimer interface [polypeptide binding]; other site 570508002543 hexamer interface [polypeptide binding]; other site 570508002544 active site 2 [active] 570508002545 recombination protein RecR; Region: recR; TIGR00615 570508002546 RecR protein; Region: RecR; pfam02132 570508002547 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 570508002548 putative active site [active] 570508002549 putative metal-binding site [ion binding]; other site 570508002550 tetramer interface [polypeptide binding]; other site 570508002551 tRNA pseudouridine synthase, TruD family; Region: tRNA_TruD_broad; TIGR00094 570508002552 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 570508002553 Permutation of conserved domain; other site 570508002554 active site 570508002555 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 570508002556 heat shock protein HtpX; Provisional; Region: PRK02870 570508002557 GTP cyclohydrolase I; Region: folE; TIGR00063 570508002558 GTP cyclohydrolase I; Provisional; Region: PLN03044 570508002559 active site 570508002560 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 570508002561 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 570508002562 substrate binding pocket [chemical binding]; other site 570508002563 chain length determination region; other site 570508002564 substrate-Mg2+ binding site; other site 570508002565 catalytic residues [active] 570508002566 aspartate-rich region 1; other site 570508002567 active site lid residues [active] 570508002568 aspartate-rich region 2; other site 570508002569 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 570508002570 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 570508002571 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 570508002572 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 570508002573 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 570508002574 Coenzyme A binding pocket [chemical binding]; other site 570508002575 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 570508002576 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508002577 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 570508002578 putative substrate translocation pore; other site 570508002579 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 570508002580 Protein of unknown function DUF262; Region: DUF262; pfam03235 570508002581 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 570508002582 dimer interface [polypeptide binding]; other site 570508002583 conserved gate region; other site 570508002584 putative PBP binding loops; other site 570508002585 ABC-ATPase subunit interface; other site 570508002586 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 570508002587 substrate binding pocket [chemical binding]; other site 570508002588 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 570508002589 membrane-bound complex binding site; other site 570508002590 hinge residues; other site 570508002591 alanine racemase; Region: alr; TIGR00492 570508002592 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 570508002593 active site 570508002594 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 570508002595 dimer interface [polypeptide binding]; other site 570508002596 substrate binding site [chemical binding]; other site 570508002597 catalytic residues [active] 570508002598 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 570508002599 amino acid carrier protein; Region: agcS; TIGR00835 570508002600 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 570508002601 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 570508002602 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 570508002603 homotrimer interaction site [polypeptide binding]; other site 570508002604 putative active site [active] 570508002605 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 570508002606 Uncharacterized conserved protein [Function unknown]; Region: COG1576 570508002607 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 570508002608 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 570508002609 putative recombination protein RecO; Provisional; Region: PRK13908 570508002610 competence/damage-inducible protein CinA C-terminal domain; Region: cinA_cterm; TIGR00199 570508002611 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 570508002612 dimer interface [polypeptide binding]; other site 570508002613 FMN binding site [chemical binding]; other site 570508002614 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 570508002615 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 570508002616 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 570508002617 active site 570508002618 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 570508002619 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 570508002620 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 570508002621 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 570508002622 Putative zinc ribbon domain; Region: DUF164; pfam02591 570508002623 dinuclear metal center protein, YbgI/SA1388 family; Region: YbgI_SA1388; TIGR00486 570508002624 Uncharacterized conserved protein [Function unknown]; Region: COG0327 570508002625 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 570508002626 dimer interface [polypeptide binding]; other site 570508002627 motif 1; other site 570508002628 active site 570508002629 motif 2; other site 570508002630 motif 3; other site 570508002631 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 570508002632 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 570508002633 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 570508002634 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 570508002635 Dynamin family; Region: Dynamin_N; pfam00350 570508002636 G1 box; other site 570508002637 GTP/Mg2+ binding site [chemical binding]; other site 570508002638 G2 box; other site 570508002639 Switch I region; other site 570508002640 G3 box; other site 570508002641 Switch II region; other site 570508002642 G4 box; other site 570508002643 G5 box; other site 570508002644 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 570508002645 G1 box; other site 570508002646 GTP/Mg2+ binding site [chemical binding]; other site 570508002647 G2 box; other site 570508002648 Switch I region; other site 570508002649 G3 box; other site 570508002650 Switch II region; other site 570508002651 G5 box; other site 570508002652 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 570508002653 G2 box; other site 570508002654 G3 box; other site 570508002655 Switch II region; other site 570508002656 G4 box; other site 570508002657 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 570508002658 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 570508002659 G1 box; other site 570508002660 GTP/Mg2+ binding site [chemical binding]; other site 570508002661 G2 box; other site 570508002662 Switch I region; other site 570508002663 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 570508002664 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 570508002665 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 570508002666 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 570508002667 Outer membrane efflux protein; Region: OEP; pfam02321 570508002668 Outer membrane efflux protein; Region: OEP; pfam02321 570508002669 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 570508002670 phosphoglyceromutase; Provisional; Region: PRK05434 570508002671 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 570508002672 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, C subunit; Region: gatC; TIGR00135 570508002673 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 570508002674 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 570508002675 inhibitor-cofactor binding pocket; inhibition site 570508002676 pyridoxal 5'-phosphate binding site [chemical binding]; other site 570508002677 catalytic residue [active] 570508002678 SurA N-terminal domain; Region: SurA_N_3; cl07813 570508002679 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 570508002680 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 570508002681 cell division protein FtsA; Region: ftsA; TIGR01174 570508002682 Cell division protein FtsA; Region: FtsA; smart00842 570508002683 Cell division protein FtsA; Region: FtsA; pfam14450 570508002684 cell division protein FtsZ; Validated; Region: PRK09330 570508002685 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 570508002686 nucleotide binding site [chemical binding]; other site 570508002687 SulA interaction site; other site 570508002688 Mechanosensitive ion channel; Region: MS_channel; pfam00924 570508002689 Domain of unknown function (DUF1887); Region: DUF1887; pfam09002 570508002690 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 570508002691 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 570508002692 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 570508002693 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 570508002694 substrate binding site [chemical binding]; other site 570508002695 activation loop (A-loop); other site 570508002696 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 570508002697 Protein phosphatase 2C; Region: PP2C_2; pfam13672 570508002698 active site 570508002699 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 570508002700 metal ion-dependent adhesion site (MIDAS); other site 570508002701 Uncharacterized conserved protein [Function unknown]; Region: COG1479 570508002702 Protein of unknown function DUF262; Region: DUF262; pfam03235 570508002703 Protein of unknown function DUF262; Region: DUF262; pfam03235 570508002704 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 570508002705 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 570508002706 DHH family; Region: DHH; pfam01368 570508002707 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 570508002708 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 570508002709 active site 570508002710 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 570508002711 catalytic residues [active] 570508002712 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 570508002713 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 570508002714 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 570508002715 putative ADP-binding pocket [chemical binding]; other site 570508002716 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 570508002717 active site 2 [active] 570508002718 active site 1 [active] 570508002719 Methyltransferase domain; Region: Methyltransf_23; pfam13489 570508002720 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 570508002721 S-adenosylmethionine binding site [chemical binding]; other site 570508002722 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 570508002723 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 570508002724 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 570508002725 active site 570508002726 HIGH motif; other site 570508002727 KMSKS motif; other site 570508002728 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 570508002729 anticodon binding site; other site 570508002730 tRNA binding surface [nucleotide binding]; other site 570508002731 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 570508002732 dimer interface [polypeptide binding]; other site 570508002733 putative tRNA-binding site [nucleotide binding]; other site 570508002734 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 570508002735 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 570508002736 S-adenosylmethionine binding site [chemical binding]; other site 570508002737 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 570508002738 Mechanosensitive ion channel; Region: MS_channel; pfam00924 570508002739 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 570508002740 GMP synthase; Reviewed; Region: guaA; PRK00074 570508002741 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 570508002742 AMP/PPi binding site [chemical binding]; other site 570508002743 candidate oxyanion hole; other site 570508002744 catalytic triad [active] 570508002745 potential glutamine specificity residues [chemical binding]; other site 570508002746 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 570508002747 ATP Binding subdomain [chemical binding]; other site 570508002748 Ligand Binding sites [chemical binding]; other site 570508002749 Dimerization subdomain; other site 570508002750 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 570508002751 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 570508002752 molybdopterin cofactor binding site [chemical binding]; other site 570508002753 substrate binding site [chemical binding]; other site 570508002754 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 570508002755 molybdopterin cofactor binding site; other site 570508002756 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 570508002757 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 570508002758 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 570508002759 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 570508002760 catalytic residue [active] 570508002761 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 570508002762 nucleotide binding site/active site [active] 570508002763 HIT family signature motif; other site 570508002764 catalytic residue [active] 570508002765 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 570508002766 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 570508002767 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 570508002768 dimer interface [polypeptide binding]; other site 570508002769 motif 1; other site 570508002770 active site 570508002771 motif 2; other site 570508002772 motif 3; other site 570508002773 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 570508002774 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 570508002775 putative tRNA-binding site [nucleotide binding]; other site 570508002776 tRNA synthetase B5 domain; Region: B5; pfam03484 570508002777 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 570508002778 dimer interface [polypeptide binding]; other site 570508002779 motif 1; other site 570508002780 motif 3; other site 570508002781 motif 2; other site 570508002782 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 570508002783 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 570508002784 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 570508002785 hinge; other site 570508002786 active site 570508002787 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 570508002788 LytB protein; Region: LYTB; pfam02401 570508002789 ribosomal protein S1; Region: rpsA; TIGR00717 570508002790 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 570508002791 RNA binding site [nucleotide binding]; other site 570508002792 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 570508002793 RNA binding site [nucleotide binding]; other site 570508002794 S1 RNA binding domain; Region: S1; pfam00575 570508002795 RNA binding site [nucleotide binding]; other site 570508002796 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 570508002797 RNA binding site [nucleotide binding]; other site 570508002798 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 570508002799 RNA binding site [nucleotide binding]; other site 570508002800 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 570508002801 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 570508002802 ligand binding site [chemical binding]; other site 570508002803 NAD binding site [chemical binding]; other site 570508002804 dimerization interface [polypeptide binding]; other site 570508002805 catalytic site [active] 570508002806 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 570508002807 putative L-serine binding site [chemical binding]; other site 570508002808 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 570508002809 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 570508002810 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 570508002811 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 570508002812 catalytic residue [active] 570508002813 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 570508002814 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 570508002815 putative active site [active] 570508002816 putative metal binding site [ion binding]; other site 570508002817 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 570508002818 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 570508002819 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 570508002820 active site 570508002821 phosphorylation site [posttranslational modification] 570508002822 intermolecular recognition site; other site 570508002823 dimerization interface [polypeptide binding]; other site 570508002824 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 570508002825 putative binding surface; other site 570508002826 active site 570508002827 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 570508002828 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 570508002829 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 570508002830 ATP binding site [chemical binding]; other site 570508002831 Mg2+ binding site [ion binding]; other site 570508002832 G-X-G motif; other site 570508002833 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 570508002834 Response regulator receiver domain; Region: Response_reg; pfam00072 570508002835 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 570508002836 active site 570508002837 phosphorylation site [posttranslational modification] 570508002838 intermolecular recognition site; other site 570508002839 dimerization interface [polypeptide binding]; other site 570508002840 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 570508002841 putative CheA interaction surface; other site 570508002842 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 570508002843 dimer interface [polypeptide binding]; other site 570508002844 catalytic triad [active] 570508002845 peroxidatic and resolving cysteines [active] 570508002846 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 570508002847 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 570508002848 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 570508002849 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 570508002850 S-adenosylmethionine binding site [chemical binding]; other site 570508002851 primosome assembly protein PriA; Validated; Region: PRK05580 570508002852 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 570508002853 ATP binding site [chemical binding]; other site 570508002854 putative Mg++ binding site [ion binding]; other site 570508002855 helicase superfamily c-terminal domain; Region: HELICc; smart00490 570508002856 Sporulation related domain; Region: SPOR; pfam05036 570508002857 Peptidase family M48; Region: Peptidase_M48; pfam01435 570508002858 HemK family putative methylases; Region: hemK_fam; TIGR00536 570508002859 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 570508002860 glutamate dehydrogenase; Provisional; Region: PRK09414 570508002861 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 570508002862 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 570508002863 NAD(P) binding site [chemical binding]; other site 570508002864 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 570508002865 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 570508002866 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 570508002867 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 570508002868 catalytic residues [active] 570508002869 ferrochelatase; Region: hemH; TIGR00109 570508002870 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 570508002871 C-terminal domain interface [polypeptide binding]; other site 570508002872 active site 570508002873 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 570508002874 active site 570508002875 N-terminal domain interface [polypeptide binding]; other site 570508002876 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 570508002877 RNA methyltransferase, RsmE family; Region: TIGR00046 570508002878 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508002879 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 570508002880 trimer interface [polypeptide binding]; other site 570508002881 active site 570508002882 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 570508002883 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 570508002884 carboxyltransferase (CT) interaction site; other site 570508002885 biotinylation site [posttranslational modification]; other site 570508002886 biotin carboxylase; Validated; Region: PRK08462 570508002887 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 570508002888 ATP-grasp domain; Region: ATP-grasp_4; cl17255 570508002889 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 570508002890 Methyltransferase domain; Region: Methyltransf_26; pfam13659 570508002891 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 570508002892 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 570508002893 inhibitor-cofactor binding pocket; inhibition site 570508002894 pyridoxal 5'-phosphate binding site [chemical binding]; other site 570508002895 catalytic residue [active] 570508002896 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 570508002897 dimer interface [polypeptide binding]; other site 570508002898 putative radical transfer pathway; other site 570508002899 diiron center [ion binding]; other site 570508002900 tyrosyl radical; other site 570508002901 protein-L-isoaspartate(D-aspartate) O-methyltransferase; Region: pimt; TIGR00080 570508002902 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 570508002903 S-adenosylmethionine binding site [chemical binding]; other site 570508002904 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 570508002905 Predicted permeases [General function prediction only]; Region: COG0795 570508002906 tRNA pseudouridine(38-40) synthase; Region: hisT_truA; TIGR00071 570508002907 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 570508002908 dimerization interface 3.5A [polypeptide binding]; other site 570508002909 active site 570508002910 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 570508002911 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 570508002912 NAD binding site [chemical binding]; other site 570508002913 homodimer interface [polypeptide binding]; other site 570508002914 active site 570508002915 substrate binding site [chemical binding]; other site 570508002916 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 570508002917 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 570508002918 putative NAD(P) binding site [chemical binding]; other site 570508002919 homodimer interface [polypeptide binding]; other site 570508002920 homotetramer interface [polypeptide binding]; other site 570508002921 active site 570508002922 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 570508002923 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 570508002924 binding surface 570508002925 TPR motif; other site 570508002926 Sel1-like repeats; Region: SEL1; smart00671 570508002927 Sel1-like repeats; Region: SEL1; smart00671 570508002928 Sel1-like repeats; Region: SEL1; smart00671 570508002929 Entner-Doudoroff aldolase; Region: eda; TIGR01182 570508002930 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 570508002931 active site 570508002932 intersubunit interface [polypeptide binding]; other site 570508002933 catalytic residue [active] 570508002934 phosphogluconate dehydratase; Validated; Region: PRK09054 570508002935 6-phosphogluconate dehydratase; Region: edd; TIGR01196 570508002936 Glucose-6-phosphate 1-dehydrogenase [Carbohydrate transport and metabolism]; Region: Zwf; COG0364 570508002937 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 570508002938 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 570508002939 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 570508002940 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 570508002941 putative active site [active] 570508002942 glucokinase, proteobacterial type; Region: glk; TIGR00749 570508002943 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 570508002944 nucleotide binding site [chemical binding]; other site 570508002945 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 570508002946 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 570508002947 putative NAD(P) binding site [chemical binding]; other site 570508002948 putative substrate binding site [chemical binding]; other site 570508002949 catalytic Zn binding site [ion binding]; other site 570508002950 structural Zn binding site [ion binding]; other site 570508002951 dimer interface [polypeptide binding]; other site 570508002952 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 570508002953 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 570508002954 active site 570508002955 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508002956 pyruvate flavodoxin oxidoreductase subunit gamma; Validated; Region: PRK05844 570508002957 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 570508002958 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 570508002959 4Fe-4S binding domain; Region: Fer4; pfam00037 570508002960 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 570508002961 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 570508002962 dimer interface [polypeptide binding]; other site 570508002963 PYR/PP interface [polypeptide binding]; other site 570508002964 TPP binding site [chemical binding]; other site 570508002965 substrate binding site [chemical binding]; other site 570508002966 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 570508002967 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 570508002968 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 570508002969 TPP-binding site [chemical binding]; other site 570508002970 putative dimer interface [polypeptide binding]; other site 570508002971 adenylosuccinate lyase; Provisional; Region: PRK08470 570508002972 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 570508002973 tetramer interface [polypeptide binding]; other site 570508002974 active site 570508002975 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 570508002976 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508002977 excinuclease ABC subunit B; Provisional; Region: PRK05298 570508002978 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 570508002979 ATP binding site [chemical binding]; other site 570508002980 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 570508002981 putative Mg++ binding site [ion binding]; other site 570508002982 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 570508002983 nucleotide binding region [chemical binding]; other site 570508002984 ATP-binding site [chemical binding]; other site 570508002985 Ultra-violet resistance protein B; Region: UvrB; pfam12344 570508002986 UvrB/uvrC motif; Region: UVR; pfam02151 570508002987 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 570508002988 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 570508002989 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 570508002990 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 570508002991 binding surface 570508002992 TPR motif; other site 570508002993 Sel1-like repeats; Region: SEL1; smart00671 570508002994 Sel1-like repeats; Region: SEL1; smart00671 570508002995 Sel1-like repeats; Region: SEL1; smart00671 570508002996 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 570508002997 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 570508002998 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 570508002999 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 570508003000 R.HinP1I restriction endonuclease; Region: R-HINP1I; pfam11463 570508003001 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 570508003002 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 570508003003 cofactor binding site; other site 570508003004 DNA binding site [nucleotide binding] 570508003005 substrate interaction site [chemical binding]; other site 570508003006 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 570508003007 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 570508003008 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 570508003009 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 570508003010 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 570508003011 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 570508003012 ligand binding site [chemical binding]; other site 570508003013 translocation protein TolB; Provisional; Region: tolB; PRK04043 570508003014 TolB amino-terminal domain; Region: TolB_N; pfam04052 570508003015 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 570508003016 TonB C terminal; Region: TonB_2; pfam13103 570508003017 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 570508003018 TolR protein; Region: tolR; TIGR02801 570508003019 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 570508003020 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 570508003021 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 570508003022 gamma subunit interface [polypeptide binding]; other site 570508003023 epsilon subunit interface [polypeptide binding]; other site 570508003024 LBP interface [polypeptide binding]; other site 570508003025 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 570508003026 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 570508003027 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 570508003028 alpha subunit interaction interface [polypeptide binding]; other site 570508003029 Walker A motif; other site 570508003030 ATP binding site [chemical binding]; other site 570508003031 Walker B motif; other site 570508003032 inhibitor binding site; inhibition site 570508003033 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 570508003034 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 570508003035 core domain interface [polypeptide binding]; other site 570508003036 delta subunit interface [polypeptide binding]; other site 570508003037 epsilon subunit interface [polypeptide binding]; other site 570508003038 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 570508003039 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 570508003040 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 570508003041 beta subunit interaction interface [polypeptide binding]; other site 570508003042 Walker A motif; other site 570508003043 ATP binding site [chemical binding]; other site 570508003044 Walker B motif; other site 570508003045 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 570508003046 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13431 570508003047 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 570508003048 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 570508003049 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 570508003050 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 570508003051 ParB-like nuclease domain; Region: ParB; smart00470 570508003052 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 570508003053 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 570508003054 P-loop; other site 570508003055 Magnesium ion binding site [ion binding]; other site 570508003056 biotin--protein ligase; Provisional; Region: PRK08477 570508003057 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 570508003058 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 570508003059 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 570508003060 putative active site [active] 570508003061 substrate binding site [chemical binding]; other site 570508003062 putative cosubstrate binding site; other site 570508003063 catalytic site [active] 570508003064 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 570508003065 PHP-associated; Region: PHP_C; pfam13263 570508003066 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 570508003067 Walker A/P-loop; other site 570508003068 ATP binding site [chemical binding]; other site 570508003069 Q-loop/lid; other site 570508003070 AAA domain; Region: AAA_21; pfam13304 570508003071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 570508003072 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 570508003073 Uncharacterized conserved protein [Function unknown]; Region: COG1432 570508003074 LabA_like proteins; Region: LabA_like; cd06167 570508003075 putative metal binding site [ion binding]; other site 570508003076 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 570508003077 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 570508003078 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 570508003079 RimM N-terminal domain; Region: RimM; pfam01782 570508003080 PRC-barrel domain; Region: PRC; pfam05239 570508003081 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 570508003082 KH domain; Region: KH_4; pfam13083 570508003083 G-X-X-G motif; other site 570508003084 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 570508003085 signal recognition particle protein; Provisional; Region: PRK10867 570508003086 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 570508003087 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 570508003088 P loop; other site 570508003089 GTP binding site [chemical binding]; other site 570508003090 Signal peptide binding domain; Region: SRP_SPB; pfam02978 570508003091 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 570508003092 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 570508003093 active site 570508003094 HIGH motif; other site 570508003095 nucleotide binding site [chemical binding]; other site 570508003096 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 570508003097 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 570508003098 active site 570508003099 KMSKS motif; other site 570508003100 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 570508003101 anticodon binding site; other site 570508003102 flagellar assembly protein FliW; Provisional; Region: PRK13283 570508003103 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 570508003104 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 570508003105 active site 570508003106 homodimer interface [polypeptide binding]; other site 570508003107 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508003108 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508003109 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 570508003110 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 570508003111 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 570508003112 Fic/DOC family; Region: Fic; cl00960 570508003113 metal-binding heat shock protein; Provisional; Region: PRK00016 570508003114 flavodoxin FldA; Validated; Region: PRK09267 570508003115 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 570508003116 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 570508003117 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 570508003118 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 570508003119 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 570508003120 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 570508003121 Major Facilitator Superfamily; Region: MFS_1; pfam07690 570508003122 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 570508003123 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 570508003124 active site 570508003125 dimer interface [polypeptide binding]; other site 570508003126 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 570508003127 dimer interface [polypeptide binding]; other site 570508003128 active site 570508003129 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 570508003130 carbon starvation protein A; Provisional; Region: PRK15015 570508003131 Carbon starvation protein CstA; Region: CstA; pfam02554 570508003132 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 570508003133 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 570508003134 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 570508003135 dimer interface [polypeptide binding]; other site 570508003136 conserved gate region; other site 570508003137 putative PBP binding loops; other site 570508003138 ABC-ATPase subunit interface; other site 570508003139 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 570508003140 dimer interface [polypeptide binding]; other site 570508003141 conserved gate region; other site 570508003142 putative PBP binding loops; other site 570508003143 ABC-ATPase subunit interface; other site 570508003144 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 570508003145 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 570508003146 Walker A/P-loop; other site 570508003147 ATP binding site [chemical binding]; other site 570508003148 Q-loop/lid; other site 570508003149 ABC transporter signature motif; other site 570508003150 Walker B; other site 570508003151 D-loop; other site 570508003152 H-loop/switch region; other site 570508003153 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 570508003154 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 570508003155 substrate binding pocket [chemical binding]; other site 570508003156 membrane-bound complex binding site; other site 570508003157 hinge residues; other site 570508003158 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 570508003159 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 570508003160 putative substrate translocation pore; other site 570508003161 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 570508003162 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508003163 purine-nucleoside phosphorylase, family 1 (deoD); Region: deoD; TIGR00107 570508003164 phosphopentomutase; Provisional; Region: PRK05362 570508003165 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 570508003166 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 570508003167 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 570508003168 Nucleoside recognition; Region: Gate; pfam07670 570508003169 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 570508003170 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 570508003171 Major Facilitator Superfamily; Region: MFS_1; pfam07690 570508003172 putative substrate translocation pore; other site 570508003173 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 570508003174 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 570508003175 Ligand Binding Site [chemical binding]; other site 570508003176 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 570508003177 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 570508003178 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 570508003179 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 570508003180 putative arabinose transporter; Provisional; Region: PRK03545 570508003181 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 570508003182 putative substrate translocation pore; other site 570508003183 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 570508003184 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 570508003185 active site 570508003186 zinc binding site [ion binding]; other site 570508003187 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 570508003188 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 570508003189 aspartate-semialdehyde dehydrogenase (peptidoglycan organisms); Region: asd_B; TIGR01296 570508003190 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 570508003191 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 570508003192 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 570508003193 dimer interface [polypeptide binding]; other site 570508003194 motif 1; other site 570508003195 active site 570508003196 motif 2; other site 570508003197 motif 3; other site 570508003198 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 570508003199 anticodon binding site; other site 570508003200 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 570508003201 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 570508003202 putative active site [active] 570508003203 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 570508003204 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 570508003205 active site 570508003206 catalytic tetrad [active] 570508003207 elongation factor G; Reviewed; Region: PRK00007 570508003208 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 570508003209 G1 box; other site 570508003210 putative GEF interaction site [polypeptide binding]; other site 570508003211 GTP/Mg2+ binding site [chemical binding]; other site 570508003212 Switch I region; other site 570508003213 G2 box; other site 570508003214 G3 box; other site 570508003215 Switch II region; other site 570508003216 G4 box; other site 570508003217 G5 box; other site 570508003218 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 570508003219 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 570508003220 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 570508003221 30S ribosomal protein S7; Validated; Region: PRK05302 570508003222 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 570508003223 S17 interaction site [polypeptide binding]; other site 570508003224 S8 interaction site; other site 570508003225 16S rRNA interaction site [nucleotide binding]; other site 570508003226 streptomycin interaction site [chemical binding]; other site 570508003227 23S rRNA interaction site [nucleotide binding]; other site 570508003228 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 570508003229 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 570508003230 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 570508003231 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 570508003232 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 570508003233 RPB11 interaction site [polypeptide binding]; other site 570508003234 RPB12 interaction site [polypeptide binding]; other site 570508003235 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 570508003236 RPB3 interaction site [polypeptide binding]; other site 570508003237 RPB1 interaction site [polypeptide binding]; other site 570508003238 RPB11 interaction site [polypeptide binding]; other site 570508003239 RPB10 interaction site [polypeptide binding]; other site 570508003240 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 570508003241 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 570508003242 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 570508003243 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 570508003244 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 570508003245 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 570508003246 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 570508003247 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 570508003248 DNA binding site [nucleotide binding] 570508003249 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 570508003250 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 570508003251 core dimer interface [polypeptide binding]; other site 570508003252 peripheral dimer interface [polypeptide binding]; other site 570508003253 L10 interface [polypeptide binding]; other site 570508003254 L11 interface [polypeptide binding]; other site 570508003255 putative EF-Tu interaction site [polypeptide binding]; other site 570508003256 putative EF-G interaction site [polypeptide binding]; other site 570508003257 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 570508003258 23S rRNA interface [nucleotide binding]; other site 570508003259 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 570508003260 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 570508003261 mRNA/rRNA interface [nucleotide binding]; other site 570508003262 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 570508003263 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 570508003264 23S rRNA interface [nucleotide binding]; other site 570508003265 L7/L12 interface [polypeptide binding]; other site 570508003266 putative thiostrepton binding site; other site 570508003267 L25 interface [polypeptide binding]; other site 570508003268 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 570508003269 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 570508003270 putative homodimer interface [polypeptide binding]; other site 570508003271 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 570508003272 heterodimer interface [polypeptide binding]; other site 570508003273 homodimer interface [polypeptide binding]; other site 570508003274 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 570508003275 elongation factor Tu; Reviewed; Region: PRK00049 570508003276 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 570508003277 G1 box; other site 570508003278 GEF interaction site [polypeptide binding]; other site 570508003279 GTP/Mg2+ binding site [chemical binding]; other site 570508003280 Switch I region; other site 570508003281 G2 box; other site 570508003282 G3 box; other site 570508003283 Switch II region; other site 570508003284 G4 box; other site 570508003285 G5 box; other site 570508003286 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 570508003287 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 570508003288 Antibiotic Binding Site [chemical binding]; other site 570508003289 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 570508003290 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 570508003291 Walker A/P-loop; other site 570508003292 ATP binding site [chemical binding]; other site 570508003293 Q-loop/lid; other site 570508003294 ABC transporter signature motif; other site 570508003295 Walker B; other site 570508003296 D-loop; other site 570508003297 H-loop/switch region; other site 570508003298 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 570508003299 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 570508003300 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 570508003301 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; pfam02086 570508003302 ICEA Protein; Region: ICEA; pfam05315 570508003303 ICEA Protein; Region: ICEA; pfam05315 570508003304 serine O-acetyltransferase; Region: cysE; TIGR01172 570508003305 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 570508003306 trimer interface [polypeptide binding]; other site 570508003307 active site 570508003308 substrate binding site [chemical binding]; other site 570508003309 CoA binding site [chemical binding]; other site 570508003310 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 570508003311 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 570508003312 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 570508003313 oligomer interface [polypeptide binding]; other site 570508003314 RNA binding site [nucleotide binding]; other site 570508003315 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 570508003316 oligomer interface [polypeptide binding]; other site 570508003317 RNA binding site [nucleotide binding]; other site 570508003318 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 570508003319 putative nucleic acid binding region [nucleotide binding]; other site 570508003320 G-X-X-G motif; other site 570508003321 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 570508003322 RNA binding site [nucleotide binding]; other site 570508003323 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG1926 570508003324 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 570508003325 Organic solvent tolerance protein; Region: OstA_C; pfam04453 570508003326 phosphoribosylamine--glycine ligase; Region: purD; TIGR00877 570508003327 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 570508003328 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 570508003329 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 570508003330 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 570508003331 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 570508003332 Walker A/P-loop; other site 570508003333 ATP binding site [chemical binding]; other site 570508003334 Q-loop/lid; other site 570508003335 ABC transporter signature motif; other site 570508003336 Walker B; other site 570508003337 D-loop; other site 570508003338 H-loop/switch region; other site 570508003339 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 570508003340 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 570508003341 catalytic residue [active] 570508003342 putative FPP diphosphate binding site; other site 570508003343 putative FPP binding hydrophobic cleft; other site 570508003344 dimer interface [polypeptide binding]; other site 570508003345 putative IPP diphosphate binding site; other site 570508003346 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 570508003347 FAD binding domain; Region: FAD_binding_4; pfam01565 570508003348 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 570508003349 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 570508003350 active site residue [active] 570508003351 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 570508003352 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 570508003353 active site 570508003354 camphor resistance protein CrcB; Provisional; Region: PRK14204 570508003355 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 570508003356 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 570508003357 FeS/SAM binding site; other site 570508003358 HemN C-terminal domain; Region: HemN_C; pfam06969 570508003359 Cytochrome c553 [Energy production and conversion]; Region: COG2863 570508003360 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 570508003361 putative active site [active] 570508003362 Ap4A binding site [chemical binding]; other site 570508003363 nudix motif; other site 570508003364 putative metal binding site [ion binding]; other site 570508003365 aspartate kinase; Reviewed; Region: PRK06635 570508003366 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 570508003367 putative nucleotide binding site [chemical binding]; other site 570508003368 putative catalytic residues [active] 570508003369 putative Mg ion binding site [ion binding]; other site 570508003370 putative aspartate binding site [chemical binding]; other site 570508003371 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 570508003372 putative allosteric regulatory site; other site 570508003373 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 570508003374 putative allosteric regulatory residue; other site 570508003375 DNA replication regulator; Region: HobA; pfam12163 570508003376 DNA polymerase III subunit delta'; Validated; Region: PRK08485 570508003377 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 570508003378 dihydropteroate synthase; Region: DHPS; TIGR01496 570508003379 substrate binding pocket [chemical binding]; other site 570508003380 dimer interface [polypeptide binding]; other site 570508003381 inhibitor binding site; inhibition site 570508003382 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 570508003383 EamA-like transporter family; Region: EamA; pfam00892 570508003384 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 570508003385 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2952 570508003386 Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarA; COG0505 570508003387 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 570508003388 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 570508003389 catalytic site [active] 570508003390 subunit interface [polypeptide binding]; other site 570508003391 formamidase; Provisional; Region: amiF; PRK13287 570508003392 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 570508003393 multimer interface [polypeptide binding]; other site 570508003394 active site 570508003395 catalytic triad [active] 570508003396 dimer interface [polypeptide binding]; other site 570508003397 Maf-like protein; Reviewed; Region: PRK04056 570508003398 putative active site [active] 570508003399 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 570508003400 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 570508003401 motif 1; other site 570508003402 active site 570508003403 motif 2; other site 570508003404 motif 3; other site 570508003405 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 570508003406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 570508003407 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508003408 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 570508003409 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 570508003410 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 570508003411 dimer interface [polypeptide binding]; other site 570508003412 ssDNA binding site [nucleotide binding]; other site 570508003413 tetramer (dimer of dimers) interface [polypeptide binding]; other site 570508003414 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 570508003415 DNA polymerase III subunit delta; Validated; Region: PRK08487 570508003416 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 570508003417 Exoribonuclease R [Transcription]; Region: VacB; COG0557 570508003418 RNB domain; Region: RNB; pfam00773 570508003419 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 570508003420 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 570508003421 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 570508003422 shikimate binding site; other site 570508003423 NAD(P) binding site [chemical binding]; other site 570508003424 Bacterial SH3 domain; Region: SH3_3; pfam08239 570508003425 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 570508003426 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 570508003427 dimer interface [polypeptide binding]; other site 570508003428 conserved gate region; other site 570508003429 putative PBP binding loops; other site 570508003430 ABC-ATPase subunit interface; other site 570508003431 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 570508003432 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 570508003433 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 570508003434 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 570508003435 active site 570508003436 HIGH motif; other site 570508003437 dimer interface [polypeptide binding]; other site 570508003438 KMSKS motif; other site 570508003439 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 570508003440 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 570508003441 S-adenosylmethionine binding site [chemical binding]; other site 570508003442 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 570508003443 ribosome recycling factor; Reviewed; Region: frr; PRK00083 570508003444 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 570508003445 hinge region; other site 570508003446 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 570508003447 active site 570508003448 RDD family; Region: RDD; pfam06271 570508003449 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 570508003450 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 570508003451 NAD+ binding site [chemical binding]; other site 570508003452 substrate binding site [chemical binding]; other site 570508003453 Zn binding site [ion binding]; other site 570508003454 NADH dehydrogenase subunit A; Validated; Region: PRK08489 570508003455 NADH dehydrogenase subunit B; Validated; Region: PRK06411 570508003456 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 570508003457 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 570508003458 NADH dehydrogenase subunit D; Validated; Region: PRK06075 570508003459 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 570508003460 NADH dehydrogenase subunit G; Validated; Region: PRK08493 570508003461 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 570508003462 catalytic loop [active] 570508003463 iron binding site [ion binding]; other site 570508003464 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 570508003465 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 570508003466 molybdopterin cofactor binding site; other site 570508003467 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 570508003468 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 570508003469 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 570508003470 4Fe-4S binding domain; Region: Fer4; cl02805 570508003471 4Fe-4S binding domain; Region: Fer4; pfam00037 570508003472 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 570508003473 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 570508003474 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 570508003475 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 570508003476 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 570508003477 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 570508003478 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 570508003479 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 570508003480 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 570508003481 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 570508003482 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 570508003483 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 570508003484 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 570508003485 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 570508003486 active site 570508003487 substrate binding site [chemical binding]; other site 570508003488 metal binding site [ion binding]; metal-binding site 570508003489 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 570508003490 substrate binding site [chemical binding]; other site 570508003491 active site 570508003492 catalytic residues [active] 570508003493 heterodimer interface [polypeptide binding]; other site 570508003494 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 570508003495 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 570508003496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 570508003497 catalytic residue [active] 570508003498 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 570508003499 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 570508003500 active site 570508003501 ribulose/triose binding site [chemical binding]; other site 570508003502 phosphate binding site [ion binding]; other site 570508003503 substrate (anthranilate) binding pocket [chemical binding]; other site 570508003504 product (indole) binding pocket [chemical binding]; other site 570508003505 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 570508003506 active site 570508003507 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 570508003508 anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245 570508003509 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 570508003510 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 570508003511 Glutamine amidotransferase class-I; Region: GATase; pfam00117 570508003512 glutamine binding [chemical binding]; other site 570508003513 catalytic triad [active] 570508003514 anthranilate synthase component I; Provisional; Region: PRK13564 570508003515 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 570508003516 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 570508003517 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 570508003518 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 570508003519 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 570508003520 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 570508003521 putative active site [active] 570508003522 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 570508003523 active site 570508003524 motif I; other site 570508003525 motif II; other site 570508003526 Uncharacterized conserved protein [Function unknown]; Region: COG2353 570508003527 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 570508003528 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 570508003529 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 570508003530 Thiamine pyrophosphokinase; Region: TPK; cd07995 570508003531 active site 570508003532 dimerization interface [polypeptide binding]; other site 570508003533 thiamine binding site [chemical binding]; other site 570508003534 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 570508003535 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 570508003536 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 570508003537 alphaNTD homodimer interface [polypeptide binding]; other site 570508003538 alphaNTD - beta interaction site [polypeptide binding]; other site 570508003539 alphaNTD - beta' interaction site [polypeptide binding]; other site 570508003540 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 570508003541 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 570508003542 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 570508003543 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 570508003544 RNA binding surface [nucleotide binding]; other site 570508003545 30S ribosomal protein S11; Validated; Region: PRK05309 570508003546 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 570508003547 30S ribosomal protein S13; Region: bact_S13; TIGR03631 570508003548 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 570508003549 rRNA binding site [nucleotide binding]; other site 570508003550 predicted 30S ribosome binding site; other site 570508003551 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 570508003552 active site 570508003553 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 570508003554 SecY translocase; Region: SecY; pfam00344 570508003555 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 570508003556 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 570508003557 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 570508003558 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 570508003559 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 570508003560 23S rRNA interface [nucleotide binding]; other site 570508003561 5S rRNA interface [nucleotide binding]; other site 570508003562 L27 interface [polypeptide binding]; other site 570508003563 L5 interface [polypeptide binding]; other site 570508003564 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 570508003565 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 570508003566 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 570508003567 30S ribosomal protein S14 570508003568 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 570508003569 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 570508003570 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 570508003571 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 570508003572 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 570508003573 RNA binding site [nucleotide binding]; other site 570508003574 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 570508003575 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 570508003576 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 570508003577 putative translocon interaction site; other site 570508003578 23S rRNA interface [nucleotide binding]; other site 570508003579 signal recognition particle (SRP54) interaction site; other site 570508003580 L23 interface [polypeptide binding]; other site 570508003581 trigger factor interaction site; other site 570508003582 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 570508003583 23S rRNA interface [nucleotide binding]; other site 570508003584 5S rRNA interface [nucleotide binding]; other site 570508003585 putative antibiotic binding site [chemical binding]; other site 570508003586 L25 interface [polypeptide binding]; other site 570508003587 L27 interface [polypeptide binding]; other site 570508003588 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 570508003589 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 570508003590 G-X-X-G motif; other site 570508003591 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 570508003592 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 570508003593 putative translocon binding site; other site 570508003594 protein-rRNA interface [nucleotide binding]; other site 570508003595 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 570508003596 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 570508003597 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 570508003598 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 570508003599 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 570508003600 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 570508003601 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 570508003602 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 570508003603 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 570508003604 AAA domain; Region: AAA_14; pfam13173 570508003605 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 570508003606 RNA/DNA hybrid binding site [nucleotide binding]; other site 570508003607 active site 570508003608 fumarate hydratase; Reviewed; Region: fumC; PRK00485 570508003609 Class II fumarases; Region: Fumarase_classII; cd01362 570508003610 active site 570508003611 tetramer interface [polypeptide binding]; other site 570508003612 YtkA-like; Region: YtkA; pfam13115 570508003613 Outer membrane efflux protein; Region: OEP; pfam02321 570508003614 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 570508003615 HlyD family secretion protein; Region: HlyD_3; pfam13437 570508003616 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 570508003617 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 570508003618 AzlC protein; Region: AzlC; cl00570 570508003619 chaperone protein DnaJ; Provisional; Region: PRK14288 570508003620 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 570508003621 HSP70 interaction site [polypeptide binding]; other site 570508003622 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 570508003623 substrate binding site [polypeptide binding]; other site 570508003624 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 570508003625 Zn binding sites [ion binding]; other site 570508003626 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 570508003627 dimer interface [polypeptide binding]; other site 570508003628 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 570508003629 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 570508003630 Ligand Binding Site [chemical binding]; other site 570508003631 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 570508003632 HSP70 interaction site [polypeptide binding]; other site 570508003633 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 570508003634 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 570508003635 active site 570508003636 (T/H)XGH motif; other site 570508003637 nickel responsive regulator; Provisional; Region: PRK00630 570508003638 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 570508003639 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 570508003640 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 570508003641 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 570508003642 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 570508003643 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 570508003644 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 570508003645 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508003646 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 570508003647 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 570508003648 Mg2+ transporter Helicobacter pylori CorA-like subgroup; Region: HpCorA-like; cd12836 570508003649 Cl binding site [ion binding]; other site 570508003650 oligomer interface [polypeptide binding]; other site 570508003651 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 570508003652 Phosphoglycerate kinase; Region: PGK; pfam00162 570508003653 substrate binding site [chemical binding]; other site 570508003654 hinge regions; other site 570508003655 ADP binding site [chemical binding]; other site 570508003656 catalytic site [active] 570508003657 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 570508003658 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 570508003659 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 570508003660 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 570508003661 ligand binding site [chemical binding]; other site 570508003662 active site 570508003663 UGI interface [polypeptide binding]; other site 570508003664 catalytic site [active] 570508003665 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 570508003666 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 570508003667 putative acyl-acceptor binding pocket; other site 570508003668 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 570508003669 C-terminal peptidase (prc); Region: prc; TIGR00225 570508003670 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 570508003671 protein binding site [polypeptide binding]; other site 570508003672 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 570508003673 Catalytic dyad [active] 570508003674 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 570508003675 DNA methylase; Region: N6_N4_Mtase; pfam01555 570508003676 TrbC/VIRB2 family; Region: TrbC; pfam04956 570508003677 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 570508003678 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 570508003679 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 570508003680 Walker A motif; other site 570508003681 ATP binding site [chemical binding]; other site 570508003682 Walker B motif; other site 570508003683 VirB8 protein; Region: VirB8; cl01500 570508003684 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 570508003685 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 570508003686 VirB7 interaction site; other site 570508003687 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 570508003688 type IV secretion system ATPase VirB11; Provisional; Region: PRK13900 570508003689 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 570508003690 Walker A motif; other site 570508003691 ATP binding site [chemical binding]; other site 570508003692 Walker B motif; other site 570508003693 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 570508003694 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 570508003695 Walker A motif; other site 570508003696 ATP binding site [chemical binding]; other site 570508003697 Walker B motif; other site 570508003698 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 570508003699 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 570508003700 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 570508003701 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 570508003702 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 570508003703 dimerization interface [polypeptide binding]; other site 570508003704 active site 570508003705 quinolinate synthetase complex, A subunit; Region: nadA; TIGR00550 570508003706 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 570508003707 prenyltransferase; Reviewed; Region: ubiA; PRK12874 570508003708 UbiA prenyltransferase family; Region: UbiA; pfam01040 570508003709 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 570508003710 Competence protein; Region: Competence; pfam03772 570508003711 replicative DNA helicase; Provisional; Region: PRK08506 570508003712 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 570508003713 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 570508003714 Walker A motif; other site 570508003715 ATP binding site [chemical binding]; other site 570508003716 Walker B motif; other site 570508003717 DNA binding loops [nucleotide binding] 570508003718 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 570508003719 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 570508003720 putative substrate binding site [chemical binding]; other site 570508003721 putative ATP binding site [chemical binding]; other site 570508003722 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 570508003723 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 570508003724 dimer interface [polypeptide binding]; other site 570508003725 phosphorylation site [posttranslational modification] 570508003726 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 570508003727 ATP binding site [chemical binding]; other site 570508003728 Mg2+ binding site [ion binding]; other site 570508003729 G-X-G motif; other site 570508003730 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 570508003731 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 570508003732 active site 570508003733 phosphorylation site [posttranslational modification] 570508003734 intermolecular recognition site; other site 570508003735 dimerization interface [polypeptide binding]; other site 570508003736 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 570508003737 DNA binding site [nucleotide binding] 570508003738 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 570508003739 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 570508003740 DNA methylase; Region: N6_N4_Mtase; pfam01555 570508003741 DNA methylase; Region: N6_N4_Mtase; pfam01555 570508003742 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 570508003743 DEAD-like helicases superfamily; Region: DEXDc; smart00487 570508003744 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 570508003745 rod shape-determining protein MreC; Region: MreC; pfam04085 570508003746 rod shape-determining protein MreB; Provisional; Region: PRK13927 570508003747 MreB and similar proteins; Region: MreB_like; cd10225 570508003748 nucleotide binding site [chemical binding]; other site 570508003749 Mg binding site [ion binding]; other site 570508003750 putative protofilament interaction site [polypeptide binding]; other site 570508003751 RodZ interaction site [polypeptide binding]; other site 570508003752 endopeptidase Clp ATP-binding regulatory subunit (clpX); Region: clpX; TIGR00382 570508003753 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 570508003754 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 570508003755 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 570508003756 Walker A motif; other site 570508003757 ATP binding site [chemical binding]; other site 570508003758 Walker B motif; other site 570508003759 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 570508003760 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 570508003761 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 570508003762 active site 570508003763 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 570508003764 flagellar assembly protein FliW; Provisional; Region: PRK13282 570508003765 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 570508003766 ATP-dependent protease La; Region: lon; TIGR00763 570508003767 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 570508003768 Walker A motif; other site 570508003769 ATP binding site [chemical binding]; other site 570508003770 Walker B motif; other site 570508003771 arginine finger; other site 570508003772 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 570508003773 prephenate dehydrogenase; Validated; Region: PRK08507 570508003774 Prephenate dehydrogenase; Region: PDH; pfam02153 570508003775 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 570508003776 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 570508003777 active site 570508003778 substrate binding site [chemical binding]; other site 570508003779 Mg2+ binding site [ion binding]; other site 570508003780 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 570508003781 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 570508003782 DNA methylase; Region: N6_N4_Mtase; pfam01555 570508003783 DNA methylase; Region: N6_N4_Mtase; pfam01555 570508003784 biotin synthase; Provisional; Region: PRK08508 570508003785 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 570508003786 FeS/SAM binding site; other site 570508003787 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 570508003788 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 570508003789 Uncharacterized conserved protein [Function unknown]; Region: COG1479 570508003790 Protein of unknown function DUF262; Region: DUF262; pfam03235 570508003791 Protein of unknown function DUF262; Region: DUF262; pfam03235 570508003792 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 570508003793 7-cyano-7-deazaguanine reductase; Region: QueF-II; TIGR03139 570508003794 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 570508003795 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 570508003796 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 570508003797 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 570508003798 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 570508003799 Ligand binding site; other site 570508003800 metal-binding site 570508003801 Adenine-specific methyltransferase EcoRI; Region: EcoRI_methylase; pfam13651 570508003802 Restriction endonuclease EcoRI; Region: EcoRI; pfam02963 570508003803 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 570508003804 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 570508003805 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 570508003806 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 570508003807 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 570508003808 Walker A motif/ATP binding site; other site 570508003809 Walker B motif; other site 570508003810 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 570508003811 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 570508003812 ATP binding site [chemical binding]; other site 570508003813 Walker A motif; other site 570508003814 hexamer interface [polypeptide binding]; other site 570508003815 Walker B motif; other site 570508003816 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 570508003817 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 570508003818 active site 570508003819 HIGH motif; other site 570508003820 nucleotide binding site [chemical binding]; other site 570508003821 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 570508003822 active site 570508003823 KMSKS motif; other site 570508003824 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 570508003825 tRNA binding surface [nucleotide binding]; other site 570508003826 anticodon binding site; other site 570508003827 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 570508003828 RNA binding surface [nucleotide binding]; other site 570508003829 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508003830 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 570508003831 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 570508003832 FeS/SAM binding site; other site 570508003833 KpsF/GutQ family protein; Region: kpsF; TIGR00393 570508003834 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 570508003835 putative active site [active] 570508003836 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 570508003837 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 570508003838 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 570508003839 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 570508003840 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 570508003841 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 570508003842 S-adenosylmethionine binding site [chemical binding]; other site 570508003843 formyltetrahydrofolate deformylase; Region: PurU; TIGR00655 570508003844 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 570508003845 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 570508003846 active site 570508003847 substrate binding site [chemical binding]; other site 570508003848 cosubstrate binding site; other site 570508003849 catalytic site [active] 570508003850 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 570508003851 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 570508003852 tandem repeat interface [polypeptide binding]; other site 570508003853 oligomer interface [polypeptide binding]; other site 570508003854 active site residues [active] 570508003855 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 570508003856 active site 570508003857 carbon storage regulator; Provisional; Region: PRK00568 570508003858 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 570508003859 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 570508003860 SmpB-tmRNA interface; other site 570508003861 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 570508003862 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 570508003863 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 570508003864 ribonuclease P protein component, eubacterial; Region: rnpA; TIGR00188 570508003865 hypothetical protein; Provisional; Region: PRK14374 570508003866 membrane protein insertase; Provisional; Region: PRK01318 570508003867 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 570508003868 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 570508003869 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 570508003870 tRNA modification GTPase TrmE; Region: mnmE_trmE_thdF; TIGR00450 570508003871 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 570508003872 GTP/Mg2+ binding site [chemical binding]; other site 570508003873 G4 box; other site 570508003874 G5 box; other site 570508003875 trmE is a tRNA modification GTPase; Region: trmE; cd04164 570508003876 G1 box; other site 570508003877 G1 box; other site 570508003878 GTP/Mg2+ binding site [chemical binding]; other site 570508003879 Switch I region; other site 570508003880 Switch I region; other site 570508003881 G2 box; other site 570508003882 G2 box; other site 570508003883 Switch II region; other site 570508003884 G3 box; other site 570508003885 G3 box; other site 570508003886 Switch II region; other site 570508003887 G4 box; other site 570508003888 G5 box; other site 570508003889 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 570508003890 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508003891 LPP20 lipoprotein; Region: LPP20; pfam02169 570508003892 LPP20 lipoprotein precursor; Region: LPP20; pfam02169 570508003893 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 570508003894 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 570508003895 catalytic residues [active] 570508003896 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 570508003897 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 570508003898 RNA binding surface [nucleotide binding]; other site 570508003899 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 570508003900 active site 570508003901 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 570508003902 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 570508003903 active site 570508003904 PHP Thumb interface [polypeptide binding]; other site 570508003905 metal binding site [ion binding]; metal-binding site 570508003906 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 570508003907 generic binding surface I; other site 570508003908 generic binding surface II; other site 570508003909 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 570508003910 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 570508003911 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 570508003912 mce related protein; Region: MCE; pfam02470 570508003913 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 570508003914 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 570508003915 Walker A/P-loop; other site 570508003916 ATP binding site [chemical binding]; other site 570508003917 Q-loop/lid; other site 570508003918 ABC transporter signature motif; other site 570508003919 Walker B; other site 570508003920 D-loop; other site 570508003921 H-loop/switch region; other site 570508003922 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 570508003923 conserved hypothetical integral membrane protein; Region: TIGR00056 570508003924 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508003925 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 570508003926 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 570508003927 homodimer interface [polypeptide binding]; other site 570508003928 substrate-cofactor binding pocket; other site 570508003929 catalytic residue [active] 570508003930 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508003931 DNA polymerase I; Region: pola; TIGR00593 570508003932 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 570508003933 active site 570508003934 metal binding site 1 [ion binding]; metal-binding site 570508003935 putative 5' ssDNA interaction site; other site 570508003936 metal binding site 3; metal-binding site 570508003937 metal binding site 2 [ion binding]; metal-binding site 570508003938 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 570508003939 putative DNA binding site [nucleotide binding]; other site 570508003940 putative metal binding site [ion binding]; other site 570508003941 3'-5' exonuclease; Region: 35EXOc; smart00474 570508003942 active site 570508003943 substrate binding site [chemical binding]; other site 570508003944 catalytic site [active] 570508003945 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 570508003946 active site 570508003947 DNA binding site [nucleotide binding] 570508003948 catalytic site [active] 570508003949 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 570508003950 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 570508003951 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 570508003952 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 570508003953 thymidylate kinase; Validated; Region: tmk; PRK00698 570508003954 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 570508003955 TMP-binding site; other site 570508003956 ATP-binding site [chemical binding]; other site 570508003957 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 570508003958 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 570508003959 active site 570508003960 (T/H)XGH motif; other site 570508003961 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 570508003962 Flavoprotein; Region: Flavoprotein; pfam02441 570508003963 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 570508003964 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 570508003965 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 570508003966 Part of AAA domain; Region: AAA_19; pfam13245 570508003967 Family description; Region: UvrD_C_2; pfam13538 570508003968 TPR repeat; Region: TPR_11; pfam13414 570508003969 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 570508003970 TPR motif; other site 570508003971 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 570508003972 binding surface 570508003973 TPR motif; other site 570508003974 seryl-tRNA synthetase; Provisional; Region: PRK05431 570508003975 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 570508003976 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 570508003977 dimer interface [polypeptide binding]; other site 570508003978 active site 570508003979 motif 1; other site 570508003980 motif 2; other site 570508003981 motif 3; other site 570508003982 Predicted amidohydrolase [General function prediction only]; Region: COG0388 570508003983 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 570508003984 active site 570508003985 catalytic triad [active] 570508003986 dimer interface [polypeptide binding]; other site 570508003987 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14065 570508003988 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 570508003989 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 570508003990 S-adenosylmethionine binding site [chemical binding]; other site 570508003991 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 570508003992 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 570508003993 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 570508003994 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 570508003995 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 570508003996 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 570508003997 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 570508003998 HlyD family secretion protein; Region: HlyD_3; pfam13437 570508003999 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 570508004000 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 570508004001 Domain of unknown function DUF21; Region: DUF21; pfam01595 570508004002 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 570508004003 Transporter associated domain; Region: CorC_HlyC; smart01091 570508004004 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 570508004005 Phosphate transporter family; Region: PHO4; pfam01384 570508004006 NifU-like domain; Region: NifU; pfam01106 570508004007 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 570508004008 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 570508004009 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 570508004010 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 570508004011 putative active site [active] 570508004012 transaldolase; Provisional; Region: PRK03903 570508004013 catalytic residue [active] 570508004014 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 570508004015 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 570508004016 5S rRNA interface [nucleotide binding]; other site 570508004017 CTC domain interface [polypeptide binding]; other site 570508004018 L16 interface [polypeptide binding]; other site 570508004019 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 570508004020 putative active site [active] 570508004021 catalytic residue [active] 570508004022 Predicted permeases [General function prediction only]; Region: COG0795 570508004023 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 570508004024 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 570508004025 PLD-like domain; Region: PLDc_2; pfam13091 570508004026 homodimer interface [polypeptide binding]; other site 570508004027 putative active site [active] 570508004028 catalytic site [active] 570508004029 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 570508004030 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508004031 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 570508004032 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 570508004033 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 570508004034 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 570508004035 metal-binding site [ion binding] 570508004036 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 570508004037 Soluble P-type ATPase [General function prediction only]; Region: COG4087 570508004038 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 570508004039 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 570508004040 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 570508004041 catalytic motif [active] 570508004042 Zn binding site [ion binding]; other site 570508004043 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 570508004044 RibD C-terminal domain; Region: RibD_C; cl17279 570508004045 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 570508004046 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 570508004047 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 570508004048 4Fe-4S binding domain; Region: Fer4_5; pfam12801 570508004049 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 570508004050 acyl-phosphate glycerol 3-phosphate acyltransferase; Region: TIGR00023 570508004051 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 570508004052 homooctamer interface [polypeptide binding]; other site 570508004053 active site 570508004054 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 570508004055 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 570508004056 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 570508004057 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 570508004058 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 570508004059 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 570508004060 NusA N-terminal domain; Region: NusA_N; pfam08529 570508004061 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 570508004062 RNA binding site [nucleotide binding]; other site 570508004063 homodimer interface [polypeptide binding]; other site 570508004064 NusA-like KH domain; Region: KH_5; pfam13184 570508004065 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 570508004066 G-X-X-G motif; other site 570508004067 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 570508004068 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 570508004069 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 570508004070 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 570508004071 ABC transporter signature motif; other site 570508004072 Walker B; other site 570508004073 D-loop; other site 570508004074 H-loop/switch region; other site 570508004075 Restriction endonuclease [Defense mechanisms]; Region: COG3587 570508004076 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 570508004077 ATP binding site [chemical binding]; other site 570508004078 putative Mg++ binding site [ion binding]; other site 570508004079 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 570508004080 DNA methylase; Region: N6_N4_Mtase; cl17433 570508004081 DNA methylase; Region: N6_N4_Mtase; pfam01555 570508004082 DNA methylase; Region: N6_N4_Mtase; pfam01555 570508004083 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 570508004084 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 570508004085 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 570508004086 ssDNA binding site; other site 570508004087 generic binding surface II; other site 570508004088 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 570508004089 ATP binding site [chemical binding]; other site 570508004090 putative Mg++ binding site [ion binding]; other site 570508004091 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 570508004092 nucleotide binding region [chemical binding]; other site 570508004093 ATP-binding site [chemical binding]; other site 570508004094 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508004095 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 570508004096 active site 570508004097 putative catalytic site [active] 570508004098 DNA binding site [nucleotide binding] 570508004099 putative phosphate binding site [ion binding]; other site 570508004100 metal binding site A [ion binding]; metal-binding site 570508004101 AP binding site [nucleotide binding]; other site 570508004102 metal binding site B [ion binding]; metal-binding site 570508004103 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 570508004104 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 570508004105 Walker A motif; other site 570508004106 ATP binding site [chemical binding]; other site 570508004107 Walker B motif; other site 570508004108 arginine finger; other site 570508004109 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 570508004110 DnaA box-binding interface [nucleotide binding]; other site 570508004111 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 570508004112 Protein of unknown function (DUF2443); Region: DUF2443; pfam10398 570508004113 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 570508004114 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 570508004115 glutaminase active site [active] 570508004116 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 570508004117 dimer interface [polypeptide binding]; other site 570508004118 active site 570508004119 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 570508004120 dimer interface [polypeptide binding]; other site 570508004121 active site 570508004122 Predicted alternative thymidylate synthase [Nucleotide transport and metabolism]; Region: THY1; COG1351 570508004123 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 570508004124 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 570508004125 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 570508004126 HsdM N-terminal domain; Region: HsdM_N; pfam12161 570508004127 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 570508004128 Protein of unknown function DUF45; Region: DUF45; pfam01863 570508004129 Arginase family; Region: Arginase; cd09989 570508004130 active site 570508004131 Mn binding site [ion binding]; other site 570508004132 oligomer interface [polypeptide binding]; other site 570508004133 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 570508004134 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 570508004135 hexamer interface [polypeptide binding]; other site 570508004136 ligand binding site [chemical binding]; other site 570508004137 putative active site [active] 570508004138 NAD(P) binding site [chemical binding]; other site 570508004139 Uncharacterized conserved protein [Function unknown]; Region: COG1479 570508004140 Protein of unknown function DUF262; Region: DUF262; pfam03235 570508004141 Uncharacterized conserved protein [Function unknown]; Region: COG1479 570508004142 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 570508004143 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 570508004144 ATP-NAD kinase; Region: NAD_kinase; pfam01513 570508004145 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 570508004146 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 570508004147 Walker A/P-loop; other site 570508004148 ATP binding site [chemical binding]; other site 570508004149 Q-loop/lid; other site 570508004150 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 570508004151 ABC transporter signature motif; other site 570508004152 Walker B; other site 570508004153 D-loop; other site 570508004154 H-loop/switch region; other site 570508004155 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 570508004156 Domain of unknown function (DUF814); Region: DUF814; pfam05670 570508004157 Methyltransferase domain; Region: Methyltransf_26; pfam13659 570508004158 Fructose-1,6-bisphosphatase [Carbohydrate transport and metabolism]; Region: Fbp; COG0158 570508004159 active site 570508004160 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 570508004161 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 570508004162 substrate binding site [chemical binding]; other site 570508004163 hexamer interface [polypeptide binding]; other site 570508004164 metal binding site [ion binding]; metal-binding site 570508004165 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 570508004166 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 570508004167 active site 570508004168 catalytic site [active] 570508004169 substrate binding site [chemical binding]; other site 570508004170 elongation factor Ts; Provisional; Region: tsf; PRK09377 570508004171 UBA/TS-N domain; Region: UBA; pfam00627 570508004172 Elongation factor TS; Region: EF_TS; pfam00889 570508004173 Elongation factor TS; Region: EF_TS; pfam00889 570508004174 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 570508004175 rRNA interaction site [nucleotide binding]; other site 570508004176 S8 interaction site; other site 570508004177 putative laminin-1 binding site; other site 570508004178 putative recombination protein RecB; Provisional; Region: PRK13909 570508004179 Family description; Region: UvrD_C_2; pfam13538 570508004180 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14856 570508004181 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 570508004182 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 570508004183 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 570508004184 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 570508004185 Protein export membrane protein; Region: SecD_SecF; pfam02355 570508004186 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 570508004187 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 570508004188 HIGH motif; other site 570508004189 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 570508004190 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 570508004191 active site 570508004192 KMSKS motif; other site 570508004193 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 570508004194 tRNA binding surface [nucleotide binding]; other site 570508004195 anticodon binding site; other site 570508004196 Lipopolysaccharide-assembly; Region: LptE; pfam04390 570508004197 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 570508004198 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 570508004199 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 570508004200 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 570508004201 Peptidase family M23; Region: Peptidase_M23; pfam01551 570508004202 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 570508004203 Peptidase family M23; Region: Peptidase_M23; pfam01551 570508004204 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 570508004205 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 570508004206 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 570508004207 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 570508004208 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 570508004209 ATP binding site [chemical binding]; other site 570508004210 putative Mg++ binding site [ion binding]; other site 570508004211 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 570508004212 nucleotide binding region [chemical binding]; other site 570508004213 ATP-binding site [chemical binding]; other site 570508004214 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 570508004215 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 570508004216 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 570508004217 [2Fe-2S] cluster binding site [ion binding]; other site 570508004218 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 570508004219 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 570508004220 intrachain domain interface; other site 570508004221 interchain domain interface [polypeptide binding]; other site 570508004222 heme bH binding site [chemical binding]; other site 570508004223 Qi binding site; other site 570508004224 heme bL binding site [chemical binding]; other site 570508004225 Qo binding site; other site 570508004226 interchain domain interface [polypeptide binding]; other site 570508004227 intrachain domain interface; other site 570508004228 Qi binding site; other site 570508004229 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 570508004230 Qo binding site; other site 570508004231 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 570508004232 Cytochrome c; Region: Cytochrom_C; pfam00034 570508004233 Cytochrome c; Region: Cytochrom_C; cl11414 570508004234 Predicted ATPases [General function prediction only]; Region: COG1106 570508004235 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 570508004236 Walker A/P-loop; other site 570508004237 ATP binding site [chemical binding]; other site 570508004238 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 570508004239 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 570508004240 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 570508004241 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 570508004242 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 570508004243 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 570508004244 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 570508004245 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 570508004246 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 570508004247 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 570508004248 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 570508004249 intersubunit interface [polypeptide binding]; other site 570508004250 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 570508004251 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 570508004252 dimer interface [polypeptide binding]; other site 570508004253 decamer (pentamer of dimers) interface [polypeptide binding]; other site 570508004254 catalytic triad [active] 570508004255 peroxidatic and resolving cysteines [active] 570508004256 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 570508004257 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 570508004258 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 570508004259 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 570508004260 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 570508004261 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 570508004262 G1 box; other site 570508004263 GTP/Mg2+ binding site [chemical binding]; other site 570508004264 Switch I region; other site 570508004265 G2 box; other site 570508004266 G3 box; other site 570508004267 Switch II region; other site 570508004268 G4 box; other site 570508004269 G5 box; other site 570508004270 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 570508004271 OstA-like protein; Region: OstA; pfam03968 570508004272 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 570508004273 motif II; other site 570508004274 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 570508004275 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 570508004276 Sporulation related domain; Region: SPOR; pfam05036 570508004277 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 570508004278 N-acetyl-D-glucosamine binding site [chemical binding]; other site 570508004279 catalytic residue [active] 570508004280 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 570508004281 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 570508004282 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 570508004283 active site 570508004284 riboflavin synthase, alpha subunit; Region: ribE; TIGR00187 570508004285 Lumazine binding domain; Region: Lum_binding; pfam00677 570508004286 Lumazine binding domain; Region: Lum_binding; pfam00677 570508004287 flhB C-terminus-related protein; Region: flhB_rel; TIGR00789 570508004288 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 570508004289 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 570508004290 Walker A/P-loop; other site 570508004291 ATP binding site [chemical binding]; other site 570508004292 Q-loop/lid; other site 570508004293 ABC transporter signature motif; other site 570508004294 Walker B; other site 570508004295 D-loop; other site 570508004296 H-loop/switch region; other site 570508004297 NIL domain; Region: NIL; pfam09383 570508004298 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 570508004299 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 570508004300 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 570508004301 active site 570508004302 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 570508004303 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 570508004304 active site 570508004305 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 570508004306 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 570508004307 Mg++ binding site [ion binding]; other site 570508004308 putative catalytic motif [active] 570508004309 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 570508004310 active site 570508004311 hydrophilic channel; other site 570508004312 dimerization interface [polypeptide binding]; other site 570508004313 catalytic residues [active] 570508004314 active site lid [active] 570508004315 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 570508004316 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 570508004317 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 570508004318 metallohydrolase, glycoprotease/Kae1 family; Region: gcp_kae1; TIGR00329 570508004319 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 570508004320 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 570508004321 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 570508004322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 570508004323 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 570508004324 hypothetical protein; Provisional; Region: PRK10236 570508004325 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 570508004326 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 570508004327 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 570508004328 putative substrate translocation pore; other site 570508004329 Major Facilitator Superfamily; Region: MFS_1; pfam07690 570508004330 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 570508004331 ATP binding site [chemical binding]; other site 570508004332 substrate interface [chemical binding]; other site 570508004333 similar to MccA 570508004334 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 570508004335 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 570508004336 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 570508004337 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 570508004338 Initiator Replication protein; Region: Rep_3; pfam01051 570508004339 Fic family protein [Function unknown]; Region: COG3177 570508004340 Fic/DOC family; Region: Fic; pfam02661