-- dump date 20140619_114206 -- class Genbank::misc_feature -- table misc_feature_note -- id note 512562000001 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 512562000002 putative RNA binding site [nucleotide binding]; other site 512562000003 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 512562000004 homopentamer interface [polypeptide binding]; other site 512562000005 active site 512562000006 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 512562000007 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 512562000008 active site clefts [active] 512562000009 zinc binding site [ion binding]; other site 512562000010 dimer interface [polypeptide binding]; other site 512562000011 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 512562000012 active site 512562000013 dimer interface [polypeptide binding]; other site 512562000014 pantoate--beta-alanine ligase; Region: panC; TIGR00018 512562000015 Pantoate-beta-alanine ligase; Region: PanC; cd00560 512562000016 active site 512562000017 ATP-binding site [chemical binding]; other site 512562000018 pantoate-binding site; other site 512562000019 HXXH motif; other site 512562000020 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 512562000021 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 512562000022 ring oligomerisation interface [polypeptide binding]; other site 512562000023 ATP/Mg binding site [chemical binding]; other site 512562000024 stacking interactions; other site 512562000025 hinge regions; other site 512562000026 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 512562000027 oligomerisation interface [polypeptide binding]; other site 512562000028 mobile loop; other site 512562000029 roof hairpin; other site 512562000030 DNA primase, catalytic core; Region: dnaG; TIGR01391 512562000031 CHC2 zinc finger; Region: zf-CHC2; pfam01807 512562000032 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 512562000033 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 512562000034 active site 512562000035 metal binding site [ion binding]; metal-binding site 512562000036 interdomain interaction site; other site 512562000037 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 512562000038 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 512562000039 Ligand Binding Site [chemical binding]; other site 512562000040 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 512562000041 TrbC/VIRB2 family; Region: TrbC; cl01583 512562000042 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 512562000043 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 512562000044 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 512562000045 Walker A motif; other site 512562000046 ATP binding site [chemical binding]; other site 512562000047 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 512562000048 Walker B motif; other site 512562000049 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 512562000050 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 512562000051 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 512562000052 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 512562000053 active site 512562000054 phosphorylation site [posttranslational modification] 512562000055 intermolecular recognition site; other site 512562000056 dimerization interface [polypeptide binding]; other site 512562000057 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 512562000058 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 512562000059 dimer interface [polypeptide binding]; other site 512562000060 active site 512562000061 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 512562000062 catalytic residues [active] 512562000063 substrate binding site [chemical binding]; other site 512562000064 lipid A 1-phosphatase; Reviewed; Region: PRK09597 512562000065 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 512562000066 active site 512562000067 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 512562000068 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 512562000069 Sulfatase; Region: Sulfatase; pfam00884 512562000070 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562000071 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 512562000072 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 512562000073 dimer interface [polypeptide binding]; other site 512562000074 active site 512562000075 citrylCoA binding site [chemical binding]; other site 512562000076 NADH binding [chemical binding]; other site 512562000077 cationic pore residues; other site 512562000078 oxalacetate/citrate binding site [chemical binding]; other site 512562000079 coenzyme A binding site [chemical binding]; other site 512562000080 catalytic triad [active] 512562000081 isocitrate dehydrogenase; Validated; Region: PRK07362 512562000082 isocitrate dehydrogenase; Reviewed; Region: PRK07006 512562000083 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 512562000084 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 512562000085 AAA domain; Region: AAA_26; pfam13500 512562000086 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 512562000087 Ligand Binding Site [chemical binding]; other site 512562000088 Uncharacterized conserved protein [Function unknown]; Region: COG2127 512562000089 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 512562000090 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 512562000091 Walker A motif; other site 512562000092 ATP binding site [chemical binding]; other site 512562000093 Walker B motif; other site 512562000094 arginine finger; other site 512562000095 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 512562000096 Walker A motif; other site 512562000097 ATP binding site [chemical binding]; other site 512562000098 Walker B motif; other site 512562000099 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 512562000100 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 512562000101 tetramerization interface [polypeptide binding]; other site 512562000102 active site 512562000103 hypothetical protein; Provisional; Region: PRK03762 512562000104 PDZ domain; Region: PDZ_2; pfam13180 512562000105 protein binding site [polypeptide binding]; other site 512562000106 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 512562000107 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 512562000108 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 512562000109 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 512562000110 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 512562000111 VirB7 interaction site; other site 512562000112 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 512562000113 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 512562000114 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 512562000115 Substrate binding site; other site 512562000116 Cupin domain; Region: Cupin_2; cl17218 512562000117 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 512562000118 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 512562000119 NADP-binding site; other site 512562000120 homotetramer interface [polypeptide binding]; other site 512562000121 substrate binding site [chemical binding]; other site 512562000122 homodimer interface [polypeptide binding]; other site 512562000123 active site 512562000124 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 512562000125 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 512562000126 NADP binding site [chemical binding]; other site 512562000127 active site 512562000128 putative substrate binding site [chemical binding]; other site 512562000129 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 512562000130 dimerization interface [polypeptide binding]; other site 512562000131 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 512562000132 ATP binding site [chemical binding]; other site 512562000133 Acylphosphatase; Region: Acylphosphatase; pfam00708 512562000134 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 512562000135 HypF finger; Region: zf-HYPF; pfam07503 512562000136 HypF finger; Region: zf-HYPF; pfam07503 512562000137 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 512562000138 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957 512562000139 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 512562000140 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 512562000141 DNA methylase; Region: N6_N4_Mtase; pfam01555 512562000142 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 512562000143 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 512562000144 cofactor binding site; other site 512562000145 DNA binding site [nucleotide binding] 512562000146 substrate interaction site [chemical binding]; other site 512562000147 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 512562000148 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 512562000149 cofactor binding site; other site 512562000150 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 512562000151 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 512562000152 Na binding site [ion binding]; other site 512562000153 Proline dehydrogenase; Region: Pro_dh; pfam01619 512562000154 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 512562000155 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 512562000156 Glutamate binding site [chemical binding]; other site 512562000157 NAD binding site [chemical binding]; other site 512562000158 catalytic residues [active] 512562000159 A nuclease of the HNH/ENDO VII superfamily with conserved WHH; Region: WHH; pfam14414 512562000160 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 512562000161 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 512562000162 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 512562000163 G1 box; other site 512562000164 GTP/Mg2+ binding site [chemical binding]; other site 512562000165 G2 box; other site 512562000166 Switch I region; other site 512562000167 G3 box; other site 512562000168 Switch II region; other site 512562000169 G4 box; other site 512562000170 G5 box; other site 512562000171 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 512562000172 UreF; Region: UreF; pfam01730 512562000173 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 512562000174 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 512562000175 dimer interface [polypeptide binding]; other site 512562000176 catalytic residues [active] 512562000177 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 512562000178 urease subunit beta; Provisional; Region: ureB; PRK13985 512562000179 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 512562000180 subunit interactions [polypeptide binding]; other site 512562000181 active site 512562000182 flap region; other site 512562000183 urease subunit alpha; Provisional; Region: PRK13986 512562000184 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 512562000185 alpha-gamma subunit interface [polypeptide binding]; other site 512562000186 beta-gamma subunit interface [polypeptide binding]; other site 512562000187 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 512562000188 gamma-beta subunit interface [polypeptide binding]; other site 512562000189 alpha-beta subunit interface [polypeptide binding]; other site 512562000190 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 512562000191 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 512562000192 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 512562000193 active site 512562000194 substrate binding site [chemical binding]; other site 512562000195 metal binding site [ion binding]; metal-binding site 512562000196 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 512562000197 peptide chain release factor 1; Validated; Region: prfA; PRK00591 512562000198 This domain is found in peptide chain release factors; Region: PCRF; smart00937 512562000199 RF-1 domain; Region: RF-1; pfam00472 512562000200 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562000201 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 512562000202 dimer interface [polypeptide binding]; other site 512562000203 putative CheW interface [polypeptide binding]; other site 512562000204 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 512562000205 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 512562000206 23S rRNA interface [nucleotide binding]; other site 512562000207 L3 interface [polypeptide binding]; other site 512562000208 Predicted dehydrogenase [General function prediction only]; Region: COG0579 512562000209 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 512562000210 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 512562000211 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 512562000212 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 512562000213 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 512562000214 NlpC/P60 family; Region: NLPC_P60; pfam00877 512562000215 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 512562000216 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 512562000217 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 512562000218 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 512562000219 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 512562000220 DNA binding residues [nucleotide binding] 512562000221 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 512562000222 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 512562000223 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 512562000224 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 512562000225 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 512562000226 Methyltransferase domain; Region: Methyltransf_26; pfam13659 512562000227 DNA methylase; Region: N6_N4_Mtase; pfam01555 512562000228 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 512562000229 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 512562000230 GDP-Fucose binding site [chemical binding]; other site 512562000231 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 512562000232 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 512562000233 putative ligand binding site [chemical binding]; other site 512562000234 putative NAD binding site [chemical binding]; other site 512562000235 catalytic site [active] 512562000236 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 512562000237 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 512562000238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 512562000239 catalytic residue [active] 512562000240 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 512562000241 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 512562000242 dimer interface [polypeptide binding]; other site 512562000243 putative CheW interface [polypeptide binding]; other site 512562000244 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 512562000245 Ligand Binding Site [chemical binding]; other site 512562000246 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562000247 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 512562000248 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 512562000249 metal-binding site 512562000250 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 512562000251 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 512562000252 dimerization interface [polypeptide binding]; other site 512562000253 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 512562000254 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 512562000255 dimer interface [polypeptide binding]; other site 512562000256 putative CheW interface [polypeptide binding]; other site 512562000257 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 512562000258 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 512562000259 active site 512562000260 metal binding site [ion binding]; metal-binding site 512562000261 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 512562000262 S-ribosylhomocysteinase; Provisional; Region: PRK02260 512562000263 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 512562000264 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 512562000265 homodimer interface [polypeptide binding]; other site 512562000266 substrate-cofactor binding pocket; other site 512562000267 pyridoxal 5'-phosphate binding site [chemical binding]; other site 512562000268 catalytic residue [active] 512562000269 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 512562000270 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 512562000271 dimer interface [polypeptide binding]; other site 512562000272 pyridoxal 5'-phosphate binding site [chemical binding]; other site 512562000273 catalytic residue [active] 512562000274 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 512562000275 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 512562000276 nucleotide binding site [chemical binding]; other site 512562000277 NEF interaction site [polypeptide binding]; other site 512562000278 SBD interface [polypeptide binding]; other site 512562000279 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 512562000280 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 512562000281 dimer interface [polypeptide binding]; other site 512562000282 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 512562000283 heat-inducible transcription repressor; Provisional; Region: PRK03911 512562000284 hypothetical protein; Provisional; Region: PRK05834 512562000285 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 512562000286 flagellin B; Provisional; Region: PRK13588 512562000287 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 512562000288 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 512562000289 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 512562000290 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 512562000291 DNA topoisomerase I; Validated; Region: PRK05582 512562000292 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 512562000293 active site 512562000294 interdomain interaction site; other site 512562000295 putative metal-binding site [ion binding]; other site 512562000296 nucleotide binding site [chemical binding]; other site 512562000297 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 512562000298 domain I; other site 512562000299 DNA binding groove [nucleotide binding] 512562000300 phosphate binding site [ion binding]; other site 512562000301 domain II; other site 512562000302 domain III; other site 512562000303 nucleotide binding site [chemical binding]; other site 512562000304 catalytic site [active] 512562000305 domain IV; other site 512562000306 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 512562000307 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 512562000308 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 512562000309 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 512562000310 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 512562000311 FeS/SAM binding site; other site 512562000312 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 512562000313 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 512562000314 phosphoenolpyruvate synthase; Validated; Region: PRK06464 512562000315 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 512562000316 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 512562000317 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 512562000318 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 512562000319 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 512562000320 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 512562000321 active site 512562000322 dimer interface [polypeptide binding]; other site 512562000323 motif 1; other site 512562000324 motif 2; other site 512562000325 motif 3; other site 512562000326 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 512562000327 anticodon binding site; other site 512562000328 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 512562000329 translation initiation factor IF-3; Region: infC; TIGR00168 512562000330 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 512562000331 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 512562000332 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 512562000333 23S rRNA binding site [nucleotide binding]; other site 512562000334 L21 binding site [polypeptide binding]; other site 512562000335 L13 binding site [polypeptide binding]; other site 512562000336 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562000337 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 512562000338 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 512562000339 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 512562000340 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 512562000341 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 512562000342 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 512562000343 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG3200 512562000344 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 512562000345 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 512562000346 catalytic triad [active] 512562000347 Uncharacterized conserved protein [Function unknown]; Region: COG1556 512562000348 iron-sulfur cluster-binding protein; Region: TIGR00273 512562000349 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 512562000350 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 512562000351 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 512562000352 Cysteine-rich domain; Region: CCG; pfam02754 512562000353 Cysteine-rich domain; Region: CCG; pfam02754 512562000354 L-lactate transport; Region: lctP; TIGR00795 512562000355 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 512562000356 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 512562000357 L-lactate transport; Region: lctP; TIGR00795 512562000358 DNA glycosylase MutY; Provisional; Region: PRK13910 512562000359 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 512562000360 minor groove reading motif; other site 512562000361 helix-hairpin-helix signature motif; other site 512562000362 substrate binding pocket [chemical binding]; other site 512562000363 active site 512562000364 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 512562000365 DNA binding and oxoG recognition site [nucleotide binding] 512562000366 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 512562000367 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 512562000368 transmembrane helices; other site 512562000369 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 512562000370 Low-spin heme binding site [chemical binding]; other site 512562000371 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 512562000372 D-pathway; other site 512562000373 Putative water exit pathway; other site 512562000374 Binuclear center (active site) [active] 512562000375 K-pathway; other site 512562000376 Putative proton exit pathway; other site 512562000377 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 512562000378 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 512562000379 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 512562000380 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 512562000381 Cytochrome c; Region: Cytochrom_C; pfam00034 512562000382 Cytochrome c; Region: Cytochrom_C; pfam00034 512562000383 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 512562000384 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 512562000385 recombinase A; Provisional; Region: recA; PRK09354 512562000386 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 512562000387 hexamer interface [polypeptide binding]; other site 512562000388 Walker A motif; other site 512562000389 ATP binding site [chemical binding]; other site 512562000390 Walker B motif; other site 512562000391 enolase; Provisional; Region: eno; PRK00077 512562000392 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 512562000393 dimer interface [polypeptide binding]; other site 512562000394 metal binding site [ion binding]; metal-binding site 512562000395 substrate binding pocket [chemical binding]; other site 512562000396 AMIN domain; Region: AMIN; pfam11741 512562000397 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 512562000398 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 512562000399 ADP binding site [chemical binding]; other site 512562000400 magnesium binding site [ion binding]; other site 512562000401 putative shikimate binding site; other site 512562000402 Cache domain; Region: Cache_1; pfam02743 512562000403 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 512562000404 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 512562000405 Ligand binding site; other site 512562000406 metal-binding site 512562000407 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 512562000408 Sel1-like repeats; Region: SEL1; smart00671 512562000409 Sel1-like repeats; Region: SEL1; smart00671 512562000410 Sel1-like repeats; Region: SEL1; smart00671 512562000411 Sel1-like repeats; Region: SEL1; smart00671 512562000412 Sel1 repeat; Region: Sel1; cl02723 512562000413 Sel1-like repeats; Region: SEL1; smart00671 512562000414 hypothetical protein; Provisional; Region: PRK12378 512562000415 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 512562000416 dimer interface [polypeptide binding]; other site 512562000417 active site 512562000418 Schiff base residues; other site 512562000419 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 512562000420 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 512562000421 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; cl00080 512562000422 dimer interface [polypeptide binding]; other site 512562000423 phosphorylation site [posttranslational modification] 512562000424 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 512562000425 ATP binding site [chemical binding]; other site 512562000426 Mg2+ binding site [ion binding]; other site 512562000427 G-X-G motif; other site 512562000428 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 512562000429 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 512562000430 active site 512562000431 phosphorylation site [posttranslational modification] 512562000432 intermolecular recognition site; other site 512562000433 dimerization interface [polypeptide binding]; other site 512562000434 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 512562000435 DNA binding site [nucleotide binding] 512562000436 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 512562000437 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 512562000438 Peptidase family U32; Region: Peptidase_U32; pfam01136 512562000439 peptide chain release factor 2; Region: prfB; TIGR00020 512562000440 This domain is found in peptide chain release factors; Region: PCRF; smart00937 512562000441 RF-1 domain; Region: RF-1; pfam00472 512562000442 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 512562000443 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 512562000444 dimer interface [polypeptide binding]; other site 512562000445 putative functional site; other site 512562000446 putative MPT binding site; other site 512562000447 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 512562000448 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 512562000449 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 512562000450 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 512562000451 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 512562000452 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 512562000453 intersubunit interface [polypeptide binding]; other site 512562000454 active site 512562000455 zinc binding site [ion binding]; other site 512562000456 Na+ binding site [ion binding]; other site 512562000457 elongation factor P; Validated; Region: PRK00529 512562000458 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 512562000459 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 512562000460 RNA binding site [nucleotide binding]; other site 512562000461 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 512562000462 RNA binding site [nucleotide binding]; other site 512562000463 pseudaminic acid synthase; Region: PseI; TIGR03586 512562000464 NeuB family; Region: NeuB; pfam03102 512562000465 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 512562000466 NeuB binding interface [polypeptide binding]; other site 512562000467 putative substrate binding site [chemical binding]; other site 512562000468 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 512562000469 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 512562000470 Walker A/P-loop; other site 512562000471 ATP binding site [chemical binding]; other site 512562000472 Q-loop/lid; other site 512562000473 ABC transporter signature motif; other site 512562000474 Walker B; other site 512562000475 D-loop; other site 512562000476 H-loop/switch region; other site 512562000477 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 512562000478 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 512562000479 active site 512562000480 catalytic triad [active] 512562000481 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 512562000482 Colicin V production protein; Region: Colicin_V; pfam02674 512562000483 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 512562000484 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 512562000485 dimer interface [polypeptide binding]; other site 512562000486 putative anticodon binding site; other site 512562000487 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 512562000488 motif 1; other site 512562000489 active site 512562000490 motif 2; other site 512562000491 motif 3; other site 512562000492 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 512562000493 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 512562000494 dimer interface [polypeptide binding]; other site 512562000495 active site 512562000496 glycine-pyridoxal phosphate binding site [chemical binding]; other site 512562000497 folate binding site [chemical binding]; other site 512562000498 Domain of unknown function (DUF1882); Region: DUF1882; pfam08966 512562000499 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 512562000500 Protein of unknown function DUF262; Region: DUF262; pfam03235 512562000501 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 512562000502 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 512562000503 putative active site [active] 512562000504 catalytic site [active] 512562000505 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 512562000506 PLD-like domain; Region: PLDc_2; pfam13091 512562000507 putative active site [active] 512562000508 catalytic site [active] 512562000509 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 512562000510 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 512562000511 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 512562000512 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 512562000513 L-aspartate oxidase; Provisional; Region: PRK06175 512562000514 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 512562000515 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 512562000516 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 512562000517 Iron-sulfur protein interface; other site 512562000518 proximal heme binding site [chemical binding]; other site 512562000519 distal heme binding site [chemical binding]; other site 512562000520 dimer interface [polypeptide binding]; other site 512562000521 triosephosphate isomerase; Provisional; Region: PRK14567 512562000522 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 512562000523 substrate binding site [chemical binding]; other site 512562000524 dimer interface [polypeptide binding]; other site 512562000525 catalytic triad [active] 512562000526 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 512562000527 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 512562000528 NAD binding site [chemical binding]; other site 512562000529 homotetramer interface [polypeptide binding]; other site 512562000530 homodimer interface [polypeptide binding]; other site 512562000531 substrate binding site [chemical binding]; other site 512562000532 active site 512562000533 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 512562000534 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 512562000535 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 512562000536 trimer interface [polypeptide binding]; other site 512562000537 active site 512562000538 UDP-GlcNAc binding site [chemical binding]; other site 512562000539 lipid binding site [chemical binding]; lipid-binding site 512562000540 S-adenosylmethionine synthetase; Validated; Region: PRK05250 512562000541 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 512562000542 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 512562000543 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 512562000544 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 512562000545 active site 512562000546 multimer interface [polypeptide binding]; other site 512562000547 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 512562000548 fatty acid/phospholipid synthesis protein PlsX; Region: plsX; TIGR00182 512562000549 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 512562000550 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 512562000551 dimer interface [polypeptide binding]; other site 512562000552 active site 512562000553 CoA binding pocket [chemical binding]; other site 512562000554 antiporter inner membrane protein; Provisional; Region: PRK11670 512562000555 Domain of unknown function DUF59; Region: DUF59; pfam01883 512562000556 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 512562000557 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 512562000558 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 512562000559 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 512562000560 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 512562000561 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 512562000562 heat shock protein 90; Provisional; Region: PRK05218 512562000563 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 512562000564 ATP binding site [chemical binding]; other site 512562000565 Mg2+ binding site [ion binding]; other site 512562000566 G-X-G motif; other site 512562000567 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 512562000568 Sel1-like repeats; Region: SEL1; smart00671 512562000569 Sel1-like repeats; Region: SEL1; smart00671 512562000570 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 512562000571 TPR motif; other site 512562000572 binding surface 512562000573 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 512562000574 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 512562000575 metal binding site [ion binding]; metal-binding site 512562000576 dimer interface [polypeptide binding]; other site 512562000577 glucose-inhibited division protein A; Region: gidA; TIGR00136 512562000578 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 512562000579 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 512562000580 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 512562000581 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 512562000582 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 512562000583 transmembrane helices; other site 512562000584 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 512562000585 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 512562000586 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: Dxr; TIGR00243 512562000587 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 512562000588 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 512562000589 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 512562000590 Beta-1,4-N-acetylgalactosaminyltransferase (CgtA); Region: CgtA; pfam06306 512562000591 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 512562000592 substrate binding site [chemical binding]; other site 512562000593 Helix-turn-helix domain; Region: HTH_28; pfam13518 512562000594 cysteine desulfurase, NifS family, epsilon proteobacteria type; Region: nifS_epsilon; TIGR03403 512562000595 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 512562000596 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 512562000597 catalytic residue [active] 512562000598 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 512562000599 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 512562000600 trimerization site [polypeptide binding]; other site 512562000601 active site 512562000602 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 512562000603 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 512562000604 DNA repair protein RadA; Region: sms; TIGR00416 512562000605 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 512562000606 Walker A motif/ATP binding site; other site 512562000607 ATP binding site [chemical binding]; other site 512562000608 Walker B motif; other site 512562000609 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 512562000610 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 512562000611 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 512562000612 SelR domain; Region: SelR; pfam01641 512562000613 Predicted permeases [General function prediction only]; Region: COG0730 512562000614 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562000615 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 512562000616 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 512562000617 Sulfate transporter family; Region: Sulfate_transp; pfam00916 512562000618 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562000619 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 512562000620 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 512562000621 Ligand binding site; other site 512562000622 oligomer interface; other site 512562000623 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 512562000624 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 512562000625 hypothetical protein; Provisional; Region: PRK04081 512562000626 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 512562000627 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 512562000628 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 512562000629 Sel1-like repeats; Region: SEL1; smart00671 512562000630 Sel1-like repeats; Region: SEL1; smart00671 512562000631 Sel1-like repeats; Region: SEL1; smart00671 512562000632 Sel1-like repeats; Region: SEL1; smart00671 512562000633 Sel1-like repeats; Region: SEL1; smart00671 512562000634 Cytochrome c; Region: Cytochrom_C; cl11414 512562000635 Porphobilinogen deaminase [Coenzyme metabolism]; Region: HemC; COG0181 512562000636 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 512562000637 domain interfaces; other site 512562000638 active site 512562000639 prolyl-tRNA synthetase, family II; Region: proS_fam_II; TIGR00409 512562000640 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 512562000641 dimer interface [polypeptide binding]; other site 512562000642 motif 1; other site 512562000643 active site 512562000644 motif 2; other site 512562000645 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 512562000646 putative deacylase active site [active] 512562000647 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 512562000648 active site 512562000649 motif 3; other site 512562000650 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 512562000651 anticodon binding site; other site 512562000652 glutamyl-tRNA reductase; Region: hemA; TIGR01035 512562000653 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 512562000654 tRNA; other site 512562000655 putative tRNA binding site [nucleotide binding]; other site 512562000656 putative NADP binding site [chemical binding]; other site 512562000657 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 512562000658 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 512562000659 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 512562000660 substrate binding pocket [chemical binding]; other site 512562000661 chain length determination region; other site 512562000662 substrate-Mg2+ binding site; other site 512562000663 catalytic residues [active] 512562000664 aspartate-rich region 1; other site 512562000665 active site lid residues [active] 512562000666 aspartate-rich region 2; other site 512562000667 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 512562000668 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 512562000669 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 512562000670 dimerization interface [polypeptide binding]; other site 512562000671 DPS ferroxidase diiron center [ion binding]; other site 512562000672 ion pore; other site 512562000673 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 512562000674 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 512562000675 dimer interface [polypeptide binding]; other site 512562000676 phosphorylation site [posttranslational modification] 512562000677 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 512562000678 ATP binding site [chemical binding]; other site 512562000679 Mg2+ binding site [ion binding]; other site 512562000680 G-X-G motif; other site 512562000681 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 512562000682 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 512562000683 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 512562000684 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 512562000685 ATP binding site [chemical binding]; other site 512562000686 Mg++ binding site [ion binding]; other site 512562000687 motif III; other site 512562000688 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 512562000689 nucleotide binding region [chemical binding]; other site 512562000690 ATP-binding site [chemical binding]; other site 512562000691 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 512562000692 SPFH domain / Band 7 family; Region: Band_7; pfam01145 512562000693 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 512562000694 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 512562000695 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 512562000696 Walker A/P-loop; other site 512562000697 ATP binding site [chemical binding]; other site 512562000698 Q-loop/lid; other site 512562000699 ABC transporter signature motif; other site 512562000700 Walker B; other site 512562000701 D-loop; other site 512562000702 H-loop/switch region; other site 512562000703 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 512562000704 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 512562000705 Walker A/P-loop; other site 512562000706 ATP binding site [chemical binding]; other site 512562000707 Q-loop/lid; other site 512562000708 ABC transporter signature motif; other site 512562000709 Walker B; other site 512562000710 D-loop; other site 512562000711 H-loop/switch region; other site 512562000712 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 512562000713 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 512562000714 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 512562000715 dimer interface [polypeptide binding]; other site 512562000716 conserved gate region; other site 512562000717 putative PBP binding loops; other site 512562000718 ABC-ATPase subunit interface; other site 512562000719 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562000720 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562000721 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 512562000722 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 512562000723 GDP-binding site [chemical binding]; other site 512562000724 ACT binding site; other site 512562000725 IMP binding site; other site 512562000726 Flagellar FliJ protein; Region: FliJ; pfam02050 512562000727 Uncharacterized conserved protein [Function unknown]; Region: COG3334 512562000728 RIP metalloprotease RseP; Region: TIGR00054 512562000729 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 512562000730 active site 512562000731 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 512562000732 protein binding site [polypeptide binding]; other site 512562000733 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 512562000734 putative substrate binding region [chemical binding]; other site 512562000735 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 512562000736 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 512562000737 generic binding surface II; other site 512562000738 generic binding surface I; other site 512562000739 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 512562000740 DNA methylase; Region: N6_N4_Mtase; pfam01555 512562000741 DNA methylase; Region: N6_N4_Mtase; pfam01555 512562000742 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 512562000743 DNA methylase; Region: N6_N4_Mtase; pfam01555 512562000744 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 512562000745 Clp amino terminal domain; Region: Clp_N; pfam02861 512562000746 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 512562000747 Walker A motif; other site 512562000748 ATP binding site [chemical binding]; other site 512562000749 Walker B motif; other site 512562000750 arginine finger; other site 512562000751 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 512562000752 Walker A motif; other site 512562000753 ATP binding site [chemical binding]; other site 512562000754 Walker B motif; other site 512562000755 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 512562000756 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 512562000757 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 512562000758 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 512562000759 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 512562000760 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 512562000761 active site 512562000762 chlorohydrolase; Provisional; Region: PRK08418 512562000763 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 512562000764 active site 512562000765 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 512562000766 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 512562000767 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 512562000768 FeS/SAM binding site; other site 512562000769 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 512562000770 putative acyl-acceptor binding pocket; other site 512562000771 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 512562000772 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 512562000773 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 512562000774 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 512562000775 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 512562000776 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 512562000777 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 512562000778 putative active site [active] 512562000779 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 512562000780 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 512562000781 putative acyl-acceptor binding pocket; other site 512562000782 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 512562000783 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 512562000784 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 512562000785 TrkA-C domain; Region: TrkA_C; pfam02080 512562000786 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 512562000787 active site 512562000788 dimer interface [polypeptide binding]; other site 512562000789 metal binding site [ion binding]; metal-binding site 512562000790 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 512562000791 Mechanosensitive ion channel; Region: MS_channel; pfam00924 512562000792 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 512562000793 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 512562000794 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 512562000795 FeS/SAM binding site; other site 512562000796 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 512562000797 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 512562000798 Walker A motif; other site 512562000799 ATP binding site [chemical binding]; other site 512562000800 Walker B motif; other site 512562000801 arginine finger; other site 512562000802 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 512562000803 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 512562000804 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 512562000805 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 512562000806 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 512562000807 Autotransporter beta-domain; Region: Autotransporter; pfam03797 512562000808 diaminopimelate decarboxylase; Region: lysA; TIGR01048 512562000809 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 512562000810 active site 512562000811 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 512562000812 substrate binding site [chemical binding]; other site 512562000813 catalytic residues [active] 512562000814 dimer interface [polypeptide binding]; other site 512562000815 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 512562000816 Uncharacterized conserved protein [Function unknown]; Region: COG4866 512562000817 aminodeoxychorismate synthase; Provisional; Region: PRK07508 512562000818 chorismate binding enzyme; Region: Chorismate_bind; cl10555 512562000819 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 512562000820 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 512562000821 substrate-cofactor binding pocket; other site 512562000822 pyridoxal 5'-phosphate binding site [chemical binding]; other site 512562000823 catalytic residue [active] 512562000824 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 512562000825 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 512562000826 multimer interface [polypeptide binding]; other site 512562000827 active site 512562000828 catalytic triad [active] 512562000829 dimer interface [polypeptide binding]; other site 512562000830 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08412 512562000831 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 512562000832 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 512562000833 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 512562000834 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 512562000835 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 512562000836 peptide binding site [polypeptide binding]; other site 512562000837 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 512562000838 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 512562000839 dimer interface [polypeptide binding]; other site 512562000840 conserved gate region; other site 512562000841 putative PBP binding loops; other site 512562000842 ABC-ATPase subunit interface; other site 512562000843 dipeptide transporter; Provisional; Region: PRK10913 512562000844 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 512562000845 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 512562000846 dimer interface [polypeptide binding]; other site 512562000847 conserved gate region; other site 512562000848 putative PBP binding loops; other site 512562000849 ABC-ATPase subunit interface; other site 512562000850 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 512562000851 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 512562000852 Walker A/P-loop; other site 512562000853 ATP binding site [chemical binding]; other site 512562000854 Q-loop/lid; other site 512562000855 ABC transporter signature motif; other site 512562000856 Walker B; other site 512562000857 D-loop; other site 512562000858 H-loop/switch region; other site 512562000859 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 512562000860 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 512562000861 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 512562000862 Walker A/P-loop; other site 512562000863 ATP binding site [chemical binding]; other site 512562000864 Q-loop/lid; other site 512562000865 ABC transporter signature motif; other site 512562000866 Walker B; other site 512562000867 D-loop; other site 512562000868 H-loop/switch region; other site 512562000869 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 512562000870 GTPase CgtA; Reviewed; Region: obgE; PRK12299 512562000871 GTP1/OBG; Region: GTP1_OBG; pfam01018 512562000872 Obg GTPase; Region: Obg; cd01898 512562000873 G1 box; other site 512562000874 GTP/Mg2+ binding site [chemical binding]; other site 512562000875 Switch I region; other site 512562000876 G2 box; other site 512562000877 G3 box; other site 512562000878 Switch II region; other site 512562000879 G4 box; other site 512562000880 G5 box; other site 512562000881 Alginate lyase; Region: Alginate_lyase; pfam05426 512562000882 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 512562000883 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 512562000884 inhibitor-cofactor binding pocket; inhibition site 512562000885 pyridoxal 5'-phosphate binding site [chemical binding]; other site 512562000886 catalytic residue [active] 512562000887 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 512562000888 Predicted amidohydrolase [General function prediction only]; Region: COG0388 512562000889 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 512562000890 active site 512562000891 catalytic triad [active] 512562000892 dimer interface [polypeptide binding]; other site 512562000893 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 512562000894 DNA methylase; Region: N6_N4_Mtase; pfam01555 512562000895 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 512562000896 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 512562000897 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 512562000898 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 512562000899 Major Facilitator Superfamily; Region: MFS_1; pfam07690 512562000900 putative substrate translocation pore; other site 512562000901 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 512562000902 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 512562000903 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 512562000904 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 512562000905 arginyl-tRNA synthetase; Region: argS; TIGR00456 512562000906 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 512562000907 active site 512562000908 HIGH motif; other site 512562000909 KMSK motif region; other site 512562000910 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 512562000911 tRNA binding surface [nucleotide binding]; other site 512562000912 anticodon binding site; other site 512562000913 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 512562000914 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 512562000915 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 512562000916 catalytic site [active] 512562000917 G-X2-G-X-G-K; other site 512562000918 Sporulation related domain; Region: SPOR; cl10051 512562000919 nuclease NucT; Provisional; Region: PRK13912 512562000920 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 512562000921 putative active site [active] 512562000922 catalytic site [active] 512562000923 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562000924 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 512562000925 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 512562000926 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 512562000927 ligand binding site; other site 512562000928 tetramer interface; other site 512562000929 Spore coat polysaccharide biosynthesis protein, predicted glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: spsG; COG3980 512562000930 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 512562000931 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 512562000932 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 512562000933 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 512562000934 NAD synthetase; Provisional; Region: PRK13980 512562000935 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 512562000936 homodimer interface [polypeptide binding]; other site 512562000937 NAD binding pocket [chemical binding]; other site 512562000938 ATP binding pocket [chemical binding]; other site 512562000939 Mg binding site [ion binding]; other site 512562000940 active-site loop [active] 512562000941 ketol-acid reductoisomerase; Provisional; Region: PRK05479 512562000942 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 512562000943 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 512562000944 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 512562000945 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 512562000946 Switch I; other site 512562000947 Switch II; other site 512562000948 cell division topological specificity factor MinE; Region: minE; TIGR01215 512562000949 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 512562000950 DNA protecting protein DprA; Region: dprA; TIGR00732 512562000951 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 512562000952 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 512562000953 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 512562000954 Sel1-like repeats; Region: SEL1; smart00671 512562000955 Sel1-like repeats; Region: SEL1; smart00671 512562000956 Sel1-like repeats; Region: SEL1; smart00671 512562000957 chlorohydrolase; Provisional; Region: PRK07213 512562000958 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 512562000959 catalytic residue [active] 512562000960 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 512562000961 Predicted membrane protein [Function unknown]; Region: COG3326 512562000962 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 512562000963 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 512562000964 active site 512562000965 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 512562000966 DHH family; Region: DHH; pfam01368 512562000967 DHHA1 domain; Region: DHHA1; pfam02272 512562000968 CTP synthetase; Validated; Region: pyrG; PRK05380 512562000969 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 512562000970 Catalytic site [active] 512562000971 active site 512562000972 UTP binding site [chemical binding]; other site 512562000973 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 512562000974 active site 512562000975 putative oxyanion hole; other site 512562000976 catalytic triad [active] 512562000977 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 512562000978 active site 512562000979 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 512562000980 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 512562000981 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 512562000982 flagellar motor switch protein FliG; Region: fliG; TIGR00207 512562000983 FliG C-terminal domain; Region: FliG_C; pfam01706 512562000984 flagellar assembly protein H; Validated; Region: fliH; PRK06669 512562000985 Flagellar assembly protein FliH; Region: FliH; pfam02108 512562000986 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 512562000987 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 512562000988 TPP-binding site; other site 512562000989 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 512562000990 PYR/PP interface [polypeptide binding]; other site 512562000991 dimer interface [polypeptide binding]; other site 512562000992 TPP binding site [chemical binding]; other site 512562000993 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 512562000994 GTP-binding protein LepA; Provisional; Region: PRK05433 512562000995 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 512562000996 G1 box; other site 512562000997 putative GEF interaction site [polypeptide binding]; other site 512562000998 GTP/Mg2+ binding site [chemical binding]; other site 512562000999 Switch I region; other site 512562001000 G2 box; other site 512562001001 G3 box; other site 512562001002 Switch II region; other site 512562001003 G4 box; other site 512562001004 G5 box; other site 512562001005 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 512562001006 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 512562001007 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 512562001008 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 512562001009 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 512562001010 cofactor binding site; other site 512562001011 DNA binding site [nucleotide binding] 512562001012 substrate interaction site [chemical binding]; other site 512562001013 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 512562001014 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 512562001015 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 512562001016 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 512562001017 putative substrate translocation pore; other site 512562001018 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 512562001019 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 512562001020 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 512562001021 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 512562001022 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 512562001023 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 512562001024 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 512562001025 TPP-binding site [chemical binding]; other site 512562001026 dimer interface [polypeptide binding]; other site 512562001027 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 512562001028 PYR/PP interface [polypeptide binding]; other site 512562001029 dimer interface [polypeptide binding]; other site 512562001030 TPP binding site [chemical binding]; other site 512562001031 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 512562001032 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 512562001033 riboflavin kinase/FMN adenylyltransferase; Region: ribF; TIGR00083 512562001034 active site 512562001035 Riboflavin kinase; Region: Flavokinase; smart00904 512562001036 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 512562001037 hemolysin TlyA family protein; Region: tly; TIGR00478 512562001038 RNA binding surface [nucleotide binding]; other site 512562001039 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 512562001040 S-adenosylmethionine binding site [chemical binding]; other site 512562001041 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 512562001042 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 512562001043 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 512562001044 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 512562001045 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 512562001046 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 512562001047 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 512562001048 Walker A/P-loop; other site 512562001049 ATP binding site [chemical binding]; other site 512562001050 Q-loop/lid; other site 512562001051 ABC transporter signature motif; other site 512562001052 Walker B; other site 512562001053 D-loop; other site 512562001054 H-loop/switch region; other site 512562001055 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 512562001056 Predicted endonuclease distantly related to archaeal Holliday junction resolvase and Mrr-like restriction enzymes [Defense mechanisms]; Region: COG1787 512562001057 Restriction endonuclease; Region: Mrr_cat; pfam04471 512562001058 Predicted ATPases [General function prediction only]; Region: COG1106 512562001059 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 512562001060 Walker A/P-loop; other site 512562001061 ATP binding site [chemical binding]; other site 512562001062 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 512562001063 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 512562001064 active site 512562001065 Zn binding site [ion binding]; other site 512562001066 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 512562001067 metal-binding site [ion binding] 512562001068 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 512562001069 metal-binding site [ion binding] 512562001070 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 512562001071 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 512562001072 Soluble P-type ATPase [General function prediction only]; Region: COG4087 512562001073 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 512562001074 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 512562001075 FtsH Extracellular; Region: FtsH_ext; pfam06480 512562001076 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 512562001077 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 512562001078 Walker A motif; other site 512562001079 ATP binding site [chemical binding]; other site 512562001080 Walker B motif; other site 512562001081 arginine finger; other site 512562001082 Peptidase family M41; Region: Peptidase_M41; pfam01434 512562001083 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 512562001084 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 512562001085 S-adenosylmethionine binding site [chemical binding]; other site 512562001086 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 512562001087 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 512562001088 active site 512562001089 phosphorylation site [posttranslational modification] 512562001090 intermolecular recognition site; other site 512562001091 dimerization interface [polypeptide binding]; other site 512562001092 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562001093 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 512562001094 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Region: gidB; TIGR00138 512562001095 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 512562001096 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 512562001097 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 512562001098 sec-independent translocase; Provisional; Region: PRK04098 512562001099 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 512562001100 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 512562001101 Walker A motif; other site 512562001102 ATP binding site [chemical binding]; other site 512562001103 Walker B motif; other site 512562001104 arginine finger; other site 512562001105 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 512562001106 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 512562001107 oligomerization interface [polypeptide binding]; other site 512562001108 active site 512562001109 metal binding site [ion binding]; metal-binding site 512562001110 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562001111 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562001112 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 512562001113 septum formation inhibitor; Reviewed; Region: minC; PRK00556 512562001114 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 512562001115 UDP-3-0-acyl N-acetylglucosamine deacetylase; Region: lpxC; TIGR00325 512562001116 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 512562001117 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 512562001118 homoserine kinase; Region: thrB; TIGR00191 512562001119 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 512562001120 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 512562001121 putative RNA binding cleft [nucleotide binding]; other site 512562001122 translation initiation factor IF-2; Region: IF-2; TIGR00487 512562001123 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 512562001124 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 512562001125 G1 box; other site 512562001126 putative GEF interaction site [polypeptide binding]; other site 512562001127 GTP/Mg2+ binding site [chemical binding]; other site 512562001128 Switch I region; other site 512562001129 G2 box; other site 512562001130 G3 box; other site 512562001131 Switch II region; other site 512562001132 G4 box; other site 512562001133 G5 box; other site 512562001134 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 512562001135 Translation-initiation factor 2; Region: IF-2; pfam11987 512562001136 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 512562001137 Ribosome-binding factor A; Region: RBFA; cl00542 512562001138 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 512562001139 Sm and related proteins; Region: Sm_like; cl00259 512562001140 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 512562001141 putative oligomer interface [polypeptide binding]; other site 512562001142 putative RNA binding site [nucleotide binding]; other site 512562001143 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 512562001144 putative active site [active] 512562001145 putative metal binding site [ion binding]; other site 512562001146 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 512562001147 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 512562001148 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 512562001149 active site 512562001150 intermolecular recognition site; other site 512562001151 dimerization interface [polypeptide binding]; other site 512562001152 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 512562001153 DNA binding site [nucleotide binding] 512562001154 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 512562001155 DHH family; Region: DHH; pfam01368 512562001156 flagellar biosynthesis protein FlhA; Region: FlhA; TIGR01398 512562001157 FHIPEP family; Region: FHIPEP; pfam00771 512562001158 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 512562001159 16S/18S rRNA binding site [nucleotide binding]; other site 512562001160 S13e-L30e interaction site [polypeptide binding]; other site 512562001161 25S rRNA binding site [nucleotide binding]; other site 512562001162 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 512562001163 O-Antigen ligase; Region: Wzy_C; pfam04932 512562001164 Dehydroquinase class II; Region: DHquinase_II; pfam01220 512562001165 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 512562001166 trimer interface [polypeptide binding]; other site 512562001167 active site 512562001168 dimer interface [polypeptide binding]; other site 512562001169 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 512562001170 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 512562001171 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 512562001172 active site 512562001173 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 512562001174 catalytic center binding site [active] 512562001175 ATP binding site [chemical binding]; other site 512562001176 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 512562001177 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 512562001178 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 512562001179 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 512562001180 P-loop; other site 512562001181 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 512562001182 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 512562001183 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 512562001184 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 512562001185 DNA binding residues [nucleotide binding] 512562001186 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 512562001187 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 512562001188 flagellar motor switch protein FliY; Validated; Region: PRK08432 512562001189 flagellar motor switch protein FliN; Region: fliN; TIGR02480 512562001190 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 512562001191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 512562001192 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 512562001193 metal binding site 2 [ion binding]; metal-binding site 512562001194 putative DNA binding helix; other site 512562001195 metal binding site 1 [ion binding]; metal-binding site 512562001196 dimer interface [polypeptide binding]; other site 512562001197 structural Zn2+ binding site [ion binding]; other site 512562001198 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 512562001199 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 512562001200 Walker A motif; other site 512562001201 ATP binding site [chemical binding]; other site 512562001202 Walker B motif; other site 512562001203 arginine finger; other site 512562001204 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 512562001205 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 512562001206 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 512562001207 DNA binding residues [nucleotide binding] 512562001208 putative dimer interface [polypeptide binding]; other site 512562001209 chaperone protein DnaJ; Provisional; Region: PRK14299 512562001210 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 512562001211 HSP70 interaction site [polypeptide binding]; other site 512562001212 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 512562001213 substrate binding site [polypeptide binding]; other site 512562001214 dimer interface [polypeptide binding]; other site 512562001215 5'-3' exonuclease; Provisional; Region: PRK14976 512562001216 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 512562001217 putative active site [active] 512562001218 Helix-hairpin-helix class 2 (Pol1 family) motifs; Region: HhH2; smart00279 512562001219 DNA binding site [nucleotide binding] 512562001220 metal binding site [ion binding]; metal-binding site 512562001221 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 512562001222 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 512562001223 active site 512562001224 dimerization interface [polypeptide binding]; other site 512562001225 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 512562001226 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 512562001227 substrate binding site; other site 512562001228 dimer interface; other site 512562001229 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 512562001230 homotrimer interaction site [polypeptide binding]; other site 512562001231 zinc binding site [ion binding]; other site 512562001232 CDP-binding sites; other site 512562001233 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 512562001234 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 512562001235 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 512562001236 protein binding site [polypeptide binding]; other site 512562001237 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 512562001238 protein binding site [polypeptide binding]; other site 512562001239 S-methylmethionine transporter; Provisional; Region: PRK11387 512562001240 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 512562001241 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 512562001242 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 512562001243 putative NAD(P) binding site [chemical binding]; other site 512562001244 active site 512562001245 dihydrodipicolinate synthase; Region: dapA; TIGR00674 512562001246 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 512562001247 dimer interface [polypeptide binding]; other site 512562001248 active site 512562001249 catalytic residue [active] 512562001250 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 512562001251 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 512562001252 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 512562001253 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 512562001254 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 512562001255 quinone interaction residues [chemical binding]; other site 512562001256 active site 512562001257 catalytic residues [active] 512562001258 FMN binding site [chemical binding]; other site 512562001259 substrate binding site [chemical binding]; other site 512562001260 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 512562001261 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 512562001262 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 512562001263 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 512562001264 putative domain interface [polypeptide binding]; other site 512562001265 putative active site [active] 512562001266 catalytic site [active] 512562001267 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 512562001268 putative active site [active] 512562001269 putative domain interface [polypeptide binding]; other site 512562001270 catalytic site [active] 512562001271 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 512562001272 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 512562001273 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 512562001274 Methyltransferase domain; Region: Methyltransf_26; pfam13659 512562001275 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 512562001276 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 512562001277 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 512562001278 ATP binding site [chemical binding]; other site 512562001279 putative Mg++ binding site [ion binding]; other site 512562001280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 512562001281 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 512562001282 putative metal binding site [ion binding]; other site 512562001283 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 512562001284 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 512562001285 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 512562001286 active site 512562001287 Zn binding site [ion binding]; other site 512562001288 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 512562001289 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 512562001290 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562001291 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 512562001292 molybdenum ABC transporter, periplasmic molybdate-binding protein; Region: modA; TIGR01256 512562001293 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 512562001294 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 512562001295 dimer interface [polypeptide binding]; other site 512562001296 conserved gate region; other site 512562001297 putative PBP binding loops; other site 512562001298 ABC-ATPase subunit interface; other site 512562001299 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 512562001300 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 512562001301 Walker A/P-loop; other site 512562001302 ATP binding site [chemical binding]; other site 512562001303 Q-loop/lid; other site 512562001304 ABC transporter signature motif; other site 512562001305 Walker B; other site 512562001306 D-loop; other site 512562001307 H-loop/switch region; other site 512562001308 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 512562001309 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 512562001310 active site 512562001311 HIGH motif; other site 512562001312 nucleotide binding site [chemical binding]; other site 512562001313 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 512562001314 active site 512562001315 KMSKS motif; other site 512562001316 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562001317 Helix-turn-helix domain; Region: HTH_17; pfam12728 512562001318 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 512562001319 Methyltransferase domain; Region: Methyltransf_26; pfam13659 512562001320 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 512562001321 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 512562001322 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 512562001323 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 512562001324 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 512562001325 G1 box; other site 512562001326 putative GEF interaction site [polypeptide binding]; other site 512562001327 GTP/Mg2+ binding site [chemical binding]; other site 512562001328 Switch I region; other site 512562001329 G2 box; other site 512562001330 G3 box; other site 512562001331 Switch II region; other site 512562001332 G4 box; other site 512562001333 G5 box; other site 512562001334 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 512562001335 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 512562001336 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 512562001337 Catalytic GIY-YIG domain of coliphage T4 non-specific endonuclease II, type II restriction endonuclease R.Hpy188I, and similar proteins; Region: GIY-YIG_EndoII_Hpy188I_like; cd10436 512562001338 GIY-YIG motif/motif A; other site 512562001339 DNA binding site [nucleotide binding] 512562001340 active site 512562001341 catalytic site [active] 512562001342 metal binding site [ion binding]; metal-binding site 512562001343 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 512562001344 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 512562001345 cofactor binding site; other site 512562001346 DNA binding site [nucleotide binding] 512562001347 substrate interaction site [chemical binding]; other site 512562001348 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 512562001349 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 512562001350 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 512562001351 putative heme binding pocket [chemical binding]; other site 512562001352 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 512562001353 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 512562001354 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 512562001355 Uncharacterized conserved protein [Function unknown]; Region: COG1432 512562001356 LabA_like proteins; Region: LabA_like; cd06167 512562001357 putative metal binding site [ion binding]; other site 512562001358 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 512562001359 active site 512562001360 putative DNA-binding cleft [nucleotide binding]; other site 512562001361 dimer interface [polypeptide binding]; other site 512562001362 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 512562001363 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 512562001364 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 512562001365 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 512562001366 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 512562001367 tetramer interface [polypeptide binding]; other site 512562001368 heme binding pocket [chemical binding]; other site 512562001369 NADPH binding site [chemical binding]; other site 512562001370 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 512562001371 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 512562001372 PhnA protein; Region: PhnA; pfam03831 512562001373 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 512562001374 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 512562001375 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 512562001376 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 512562001377 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 512562001378 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 512562001379 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK00564 512562001380 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 512562001381 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 512562001382 lipid-A-disaccharide synthase; Region: lpxB; TIGR00215 512562001383 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 512562001384 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 512562001385 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 512562001386 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 512562001387 trimer interface [polypeptide binding]; other site 512562001388 active site 512562001389 PQQ-like domain; Region: PQQ_2; pfam13360 512562001390 pantothenate kinase; Reviewed; Region: PRK13333 512562001391 Uncharacterized conserved protein [Function unknown]; Region: COG2836 512562001392 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 512562001393 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 512562001394 active site 512562001395 motif I; other site 512562001396 motif II; other site 512562001397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 512562001398 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 512562001399 NAD(P) binding site [chemical binding]; other site 512562001400 active site 512562001401 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 512562001402 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 512562001403 putative ribose interaction site [chemical binding]; other site 512562001404 putative ADP binding site [chemical binding]; other site 512562001405 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 512562001406 active site 512562001407 nucleotide binding site [chemical binding]; other site 512562001408 HIGH motif; other site 512562001409 KMSKS motif; other site 512562001410 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 512562001411 dimer interface [polypeptide binding]; other site 512562001412 active site 512562001413 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 512562001414 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 512562001415 active site 512562001416 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 512562001417 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 512562001418 Walker A/P-loop; other site 512562001419 ATP binding site [chemical binding]; other site 512562001420 Q-loop/lid; other site 512562001421 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 512562001422 ABC transporter; Region: ABC_tran_2; pfam12848 512562001423 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 512562001424 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2958 512562001425 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 512562001426 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 512562001427 active site 512562001428 HaeIII restriction endonuclease; Region: RE_HaeIII; pfam09556 512562001429 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 512562001430 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 512562001431 cofactor binding site; other site 512562001432 DNA binding site [nucleotide binding] 512562001433 substrate interaction site [chemical binding]; other site 512562001434 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 512562001435 HsdM N-terminal domain; Region: HsdM_N; pfam12161 512562001436 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 512562001437 S-adenosylmethionine binding site [chemical binding]; other site 512562001438 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 512562001439 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 512562001440 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 512562001441 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 512562001442 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 512562001443 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 512562001444 ATP binding site [chemical binding]; other site 512562001445 putative Mg++ binding site [ion binding]; other site 512562001446 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 512562001447 substrate binding site [chemical binding]; other site 512562001448 multimerization interface [polypeptide binding]; other site 512562001449 ATP binding site [chemical binding]; other site 512562001450 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 512562001451 dimer interface [polypeptide binding]; other site 512562001452 substrate binding site [chemical binding]; other site 512562001453 ATP binding site [chemical binding]; other site 512562001454 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 512562001455 thiamine phosphate binding site [chemical binding]; other site 512562001456 active site 512562001457 pyrophosphate binding site [ion binding]; other site 512562001458 phosphopantothenoylcysteine decarboxylase / phosphopantothenate--cysteine ligase; Region: coaBC_dfp; TIGR00521 512562001459 Flavoprotein; Region: Flavoprotein; pfam02441 512562001460 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 512562001461 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 512562001462 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 512562001463 NAD(P) binding site [chemical binding]; other site 512562001464 homodimer interface [polypeptide binding]; other site 512562001465 substrate binding site [chemical binding]; other site 512562001466 active site 512562001467 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 512562001468 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 512562001469 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 512562001470 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 512562001471 IHF dimer interface [polypeptide binding]; other site 512562001472 IHF - DNA interface [nucleotide binding]; other site 512562001473 GTP-binding protein Der; Reviewed; Region: PRK00093 512562001474 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 512562001475 G1 box; other site 512562001476 GTP/Mg2+ binding site [chemical binding]; other site 512562001477 Switch I region; other site 512562001478 G2 box; other site 512562001479 Switch II region; other site 512562001480 G3 box; other site 512562001481 G4 box; other site 512562001482 G5 box; other site 512562001483 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 512562001484 G1 box; other site 512562001485 GTP/Mg2+ binding site [chemical binding]; other site 512562001486 Switch I region; other site 512562001487 G2 box; other site 512562001488 G3 box; other site 512562001489 Switch II region; other site 512562001490 G4 box; other site 512562001491 G5 box; other site 512562001492 spermidine synthase; Provisional; Region: speE; PRK00536 512562001493 spermidine synthase; Provisional; Region: PRK00811 512562001494 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 512562001495 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 512562001496 CoA-binding site [chemical binding]; other site 512562001497 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, A subunit; Region: gatA; TIGR00132 512562001498 indole acetimide hydrolase; Validated; Region: PRK07488 512562001499 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 512562001500 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 512562001501 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 512562001502 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 512562001503 active site 512562001504 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 512562001505 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 512562001506 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 512562001507 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 512562001508 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 512562001509 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 512562001510 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 512562001511 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 512562001512 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 512562001513 catalytic residues [active] 512562001514 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 512562001515 homoserine dehydrogenase; Provisional; Region: PRK06349 512562001516 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 512562001517 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 512562001518 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 512562001519 excinuclease ABC, C subunit; Region: uvrC; TIGR00194 512562001520 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 512562001521 GIY-YIG motif/motif A; other site 512562001522 active site 512562001523 catalytic site [active] 512562001524 putative DNA binding site [nucleotide binding]; other site 512562001525 metal binding site [ion binding]; metal-binding site 512562001526 UvrB/uvrC motif; Region: UVR; pfam02151 512562001527 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 512562001528 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 512562001529 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 512562001530 Walker A/P-loop; other site 512562001531 ATP binding site [chemical binding]; other site 512562001532 Q-loop/lid; other site 512562001533 ABC transporter signature motif; other site 512562001534 Walker B; other site 512562001535 D-loop; other site 512562001536 H-loop/switch region; other site 512562001537 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 512562001538 dimer interface [polypeptide binding]; other site 512562001539 conserved gate region; other site 512562001540 ABC-ATPase subunit interface; other site 512562001541 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 512562001542 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 512562001543 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 512562001544 ligand binding site [chemical binding]; other site 512562001545 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 512562001546 flagellar motor protein MotA; Validated; Region: PRK08456 512562001547 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 512562001548 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 512562001549 ATP binding site [chemical binding]; other site 512562001550 substrate interface [chemical binding]; other site 512562001551 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 512562001552 Uncharacterized conserved protein [Function unknown]; Region: COG1565 512562001553 RNA methyltransferase, RsmD family; Region: TIGR00095 512562001554 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 512562001555 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 512562001556 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 512562001557 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 512562001558 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 512562001559 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 512562001560 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 512562001561 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: ribB; TIGR00506 512562001562 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 512562001563 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 512562001564 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 512562001565 dimerization interface [polypeptide binding]; other site 512562001566 active site 512562001567 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 512562001568 MoaE interaction surface [polypeptide binding]; other site 512562001569 MoeB interaction surface [polypeptide binding]; other site 512562001570 thiocarboxylated glycine; other site 512562001571 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 512562001572 MoaE homodimer interface [polypeptide binding]; other site 512562001573 MoaD interaction [polypeptide binding]; other site 512562001574 active site residues [active] 512562001575 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 512562001576 MPT binding site; other site 512562001577 trimer interface [polypeptide binding]; other site 512562001578 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 512562001579 trimer interface [polypeptide binding]; other site 512562001580 dimer interface [polypeptide binding]; other site 512562001581 putative active site [active] 512562001582 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 512562001583 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562001584 trigger factor; Provisional; Region: tig; PRK01490 512562001585 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 512562001586 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 512562001587 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 512562001588 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 512562001589 oligomer interface [polypeptide binding]; other site 512562001590 active site residues [active] 512562001591 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 512562001592 active site 512562001593 catalytic residues [active] 512562001594 metal binding site [ion binding]; metal-binding site 512562001595 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 512562001596 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 512562001597 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 512562001598 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 512562001599 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 512562001600 metal-binding site [ion binding] 512562001601 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 512562001602 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 512562001603 Soluble P-type ATPase [General function prediction only]; Region: COG4087 512562001604 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 512562001605 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 512562001606 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 512562001607 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 512562001608 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 512562001609 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 512562001610 FtsX-like permease family; Region: FtsX; pfam02687 512562001611 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 512562001612 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 512562001613 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 512562001614 nucleotide binding region [chemical binding]; other site 512562001615 ATP-binding site [chemical binding]; other site 512562001616 SEC-C motif; Region: SEC-C; pfam02810 512562001617 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 512562001618 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 512562001619 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 512562001620 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 512562001621 aconitate hydratase 2; Region: acnB; TIGR00117 512562001622 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 512562001623 substrate binding site [chemical binding]; other site 512562001624 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 512562001625 substrate binding site [chemical binding]; other site 512562001626 ligand binding site [chemical binding]; other site 512562001627 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 512562001628 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 512562001629 putative nucleotide binding site [chemical binding]; other site 512562001630 uridine monophosphate binding site [chemical binding]; other site 512562001631 homohexameric interface [polypeptide binding]; other site 512562001632 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 512562001633 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 512562001634 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 512562001635 Zn2+ binding site [ion binding]; other site 512562001636 Mg2+ binding site [ion binding]; other site 512562001637 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 512562001638 synthetase active site [active] 512562001639 NTP binding site [chemical binding]; other site 512562001640 metal binding site [ion binding]; metal-binding site 512562001641 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 512562001642 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 512562001643 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 512562001644 active site 512562001645 HIGH motif; other site 512562001646 dimer interface [polypeptide binding]; other site 512562001647 KMSKS motif; other site 512562001648 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 512562001649 RNA binding surface [nucleotide binding]; other site 512562001650 Nitronate monooxygenase; Region: NMO; pfam03060 512562001651 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 512562001652 FMN binding site [chemical binding]; other site 512562001653 substrate binding site [chemical binding]; other site 512562001654 putative catalytic residue [active] 512562001655 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 512562001656 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 512562001657 active site 512562001658 metal binding site [ion binding]; metal-binding site 512562001659 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 512562001660 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 512562001661 GTP binding site; other site 512562001662 Molybdenum cofactor biosynthesis enzyme [Coenzyme metabolism]; Region: MoaA; COG2896 512562001663 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 512562001664 FeS/SAM binding site; other site 512562001665 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 512562001666 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 512562001667 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 512562001668 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 512562001669 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 512562001670 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 512562001671 phosphodiesterase; Provisional; Region: PRK12704 512562001672 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 512562001673 nucleic acid binding region [nucleotide binding]; other site 512562001674 G-X-X-G motif; other site 512562001675 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 512562001676 Zn2+ binding site [ion binding]; other site 512562001677 Mg2+ binding site [ion binding]; other site 512562001678 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 512562001679 putative efflux protein, MATE family; Region: matE; TIGR00797 512562001680 Predicted permease [General function prediction only]; Region: COG2056 512562001681 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 512562001682 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 512562001683 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 512562001684 putative active site; other site 512562001685 catalytic triad [active] 512562001686 putative dimer interface [polypeptide binding]; other site 512562001687 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 512562001688 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 512562001689 putative ATP binding site [chemical binding]; other site 512562001690 putative substrate interface [chemical binding]; other site 512562001691 flagellar biosynthetic protein FliS; Region: fliS; TIGR00208 512562001692 flagellar capping protein; Validated; Region: fliD; PRK08453 512562001693 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 512562001694 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 512562001695 flagellar protein FlaG; Provisional; Region: PRK08452 512562001696 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 512562001697 Peptidase family M23; Region: Peptidase_M23; pfam01551 512562001698 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 512562001699 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 512562001700 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 512562001701 Walker A/P-loop; other site 512562001702 ATP binding site [chemical binding]; other site 512562001703 Q-loop/lid; other site 512562001704 ABC transporter signature motif; other site 512562001705 Walker B; other site 512562001706 D-loop; other site 512562001707 H-loop/switch region; other site 512562001708 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 512562001709 S-adenosylmethionine binding site [chemical binding]; other site 512562001710 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 512562001711 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 512562001712 Interdomain contacts; other site 512562001713 Cytokine receptor motif; other site 512562001714 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 512562001715 Interdomain contacts; other site 512562001716 Cytokine receptor motif; other site 512562001717 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 512562001718 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 512562001719 active site 512562001720 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 512562001721 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 512562001722 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 512562001723 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 512562001724 active site 512562001725 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 512562001726 nucleotide binding site/active site [active] 512562001727 HIT family signature motif; other site 512562001728 catalytic residue [active] 512562001729 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 512562001730 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 512562001731 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 512562001732 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 512562001733 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 512562001734 ATP-grasp domain; Region: ATP-grasp_4; cl17255 512562001735 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 512562001736 tetramer interfaces [polypeptide binding]; other site 512562001737 binuclear metal-binding site [ion binding]; other site 512562001738 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 512562001739 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 512562001740 catalytic residue [active] 512562001741 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 512562001742 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 512562001743 active site 512562001744 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 512562001745 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 512562001746 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 512562001747 FeS/SAM binding site; other site 512562001748 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 512562001749 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 512562001750 Ligand Binding Site [chemical binding]; other site 512562001751 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 512562001752 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 512562001753 FMN binding site [chemical binding]; other site 512562001754 active site 512562001755 catalytic residues [active] 512562001756 substrate binding site [chemical binding]; other site 512562001757 anaerobic c4-dicarboxylate membrane transporter family protein; Region: Dcu; TIGR00770 512562001758 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 512562001759 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 512562001760 active site 512562001761 homotetramer interface [polypeptide binding]; other site 512562001762 homodimer interface [polypeptide binding]; other site 512562001763 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 512562001764 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 512562001765 LysE type translocator; Region: LysE; cl00565 512562001766 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 512562001767 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 512562001768 Walker A motif; other site 512562001769 ATP binding site [chemical binding]; other site 512562001770 Walker B motif; other site 512562001771 arginine finger; other site 512562001772 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 512562001773 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 512562001774 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 512562001775 Walker A/P-loop; other site 512562001776 ATP binding site [chemical binding]; other site 512562001777 Q-loop/lid; other site 512562001778 ABC transporter signature motif; other site 512562001779 Walker B; other site 512562001780 D-loop; other site 512562001781 H-loop/switch region; other site 512562001782 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 512562001783 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 512562001784 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 512562001785 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 512562001786 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562001787 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 512562001788 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 512562001789 Uncharacterized conserved protein [Function unknown]; Region: COG1912 512562001790 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 512562001791 MraW methylase family; Region: Methyltransf_5; cl17771 512562001792 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562001793 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 512562001794 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 512562001795 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 512562001796 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 512562001797 Response regulator receiver domain; Region: Response_reg; pfam00072 512562001798 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 512562001799 active site 512562001800 phosphorylation site [posttranslational modification] 512562001801 intermolecular recognition site; other site 512562001802 dimerization interface [polypeptide binding]; other site 512562001803 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 512562001804 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 512562001805 Walker A motif; other site 512562001806 ATP binding site [chemical binding]; other site 512562001807 Walker B motif; other site 512562001808 arginine finger; other site 512562001809 DNA gyrase subunit A; Validated; Region: PRK05560 512562001810 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 512562001811 CAP-like domain; other site 512562001812 active site 512562001813 primary dimer interface [polypeptide binding]; other site 512562001814 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 512562001815 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 512562001816 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 512562001817 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 512562001818 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 512562001819 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 512562001820 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 512562001821 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 512562001822 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 512562001823 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 512562001824 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 512562001825 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 512562001826 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 512562001827 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3528 512562001828 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 512562001829 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 512562001830 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 512562001831 putative acyltransferase; Provisional; Region: PRK05790 512562001832 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 512562001833 dimer interface [polypeptide binding]; other site 512562001834 active site 512562001835 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB [DNA replication, recombination, and repair]; Region: COG3298 512562001836 CfrBI restriction endonuclease; Region: RE_CfrBI; pfam09516 512562001837 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 512562001838 DNA methylase; Region: N6_N4_Mtase; pfam01555 512562001839 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 512562001840 active site 512562001841 catalytic site [active] 512562001842 substrate binding site [chemical binding]; other site 512562001843 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 512562001844 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 512562001845 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 512562001846 G1 box; other site 512562001847 GTP/Mg2+ binding site [chemical binding]; other site 512562001848 Switch I region; other site 512562001849 G2 box; other site 512562001850 G3 box; other site 512562001851 Switch II region; other site 512562001852 G4 box; other site 512562001853 G5 box; other site 512562001854 Nucleoside recognition; Region: Gate; pfam07670 512562001855 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 512562001856 Nucleoside recognition; Region: Gate; pfam07670 512562001857 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 512562001858 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 512562001859 N-terminal plug; other site 512562001860 ligand-binding site [chemical binding]; other site 512562001861 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 512562001862 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 512562001863 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 512562001864 Substrate binding site; other site 512562001865 Mg++ binding site; other site 512562001866 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 512562001867 active site 512562001868 substrate binding site [chemical binding]; other site 512562001869 CoA binding site [chemical binding]; other site 512562001870 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 512562001871 ATP cone domain; Region: ATP-cone; pfam03477 512562001872 Class I ribonucleotide reductase; Region: RNR_I; cd01679 512562001873 active site 512562001874 dimer interface [polypeptide binding]; other site 512562001875 catalytic residues [active] 512562001876 effector binding site; other site 512562001877 R2 peptide binding site; other site 512562001878 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 512562001879 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 512562001880 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 512562001881 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 512562001882 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 512562001883 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 512562001884 DNA binding site [nucleotide binding] 512562001885 active site 512562001886 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 512562001887 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 512562001888 active site 512562001889 DNA binding site [nucleotide binding] 512562001890 Int/Topo IB signature motif; other site 512562001891 aspartate aminotransferase; Provisional; Region: PRK05764 512562001892 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 512562001893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 512562001894 homodimer interface [polypeptide binding]; other site 512562001895 catalytic residue [active] 512562001896 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562001897 Predicted helicase [General function prediction only]; Region: COG4889 512562001898 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 512562001899 ATP binding site [chemical binding]; other site 512562001900 putative Mg++ binding site [ion binding]; other site 512562001901 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 512562001902 nucleotide binding region [chemical binding]; other site 512562001903 ATP-binding site [chemical binding]; other site 512562001904 Restriction endonuclease; Region: Mrr_cat_2; pfam13156 512562001905 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 512562001906 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 512562001907 Cysteine-rich domain; Region: CCG; pfam02754 512562001908 Cysteine-rich domain; Region: CCG; pfam02754 512562001909 oxygen-independent coproporphyrinogen III oxidase; Region: hemN; TIGR00538 512562001910 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 512562001911 FeS/SAM binding site; other site 512562001912 HemN C-terminal domain; Region: HemN_C; pfam06969 512562001913 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 512562001914 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 512562001915 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 512562001916 Tetramer interface [polypeptide binding]; other site 512562001917 active site 512562001918 FMN-binding site [chemical binding]; other site 512562001919 ribonuclease III; Reviewed; Region: rnc; PRK00102 512562001920 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 512562001921 dimerization interface [polypeptide binding]; other site 512562001922 active site 512562001923 metal binding site [ion binding]; metal-binding site 512562001924 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 512562001925 dsRNA binding site [nucleotide binding]; other site 512562001926 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 512562001927 RNA/DNA hybrid binding site [nucleotide binding]; other site 512562001928 active site 512562001929 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 512562001930 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]; Region: COG1439 512562001931 SurA N-terminal domain; Region: SurA_N; pfam09312 512562001932 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 512562001933 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 512562001934 GatB domain; Region: GatB_Yqey; smart00845 512562001935 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 512562001936 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 512562001937 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 512562001938 hypothetical protein; Provisional; Region: PRK08445 512562001939 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 512562001940 FeS/SAM binding site; other site 512562001941 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 512562001942 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 512562001943 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 512562001944 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 512562001945 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 512562001946 Surface antigen; Region: Bac_surface_Ag; pfam01103 512562001947 hypothetical protein; Provisional; Region: PRK08444 512562001948 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 512562001949 FeS/SAM binding site; other site 512562001950 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 512562001951 Ferritin-like domain; Region: Ferritin; pfam00210 512562001952 ferroxidase diiron center [ion binding]; other site 512562001953 phosphoserine phosphatase SerB; Region: serB; TIGR00338 512562001954 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 512562001955 motif II; other site 512562001956 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 512562001957 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 512562001958 ligand binding site [chemical binding]; other site 512562001959 active site 512562001960 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 512562001961 Aspartase; Region: Aspartase; cd01357 512562001962 active sites [active] 512562001963 tetramer interface [polypeptide binding]; other site 512562001964 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 512562001965 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 512562001966 hinge; other site 512562001967 active site 512562001968 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 512562001969 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 512562001970 active site 512562001971 tetramer interface; other site 512562001972 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 512562001973 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 512562001974 N-acetyl-D-glucosamine binding site [chemical binding]; other site 512562001975 catalytic residue [active] 512562001976 YGGT family; Region: YGGT; pfam02325 512562001977 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 512562001978 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 512562001979 active site 512562001980 HIGH motif; other site 512562001981 nucleotide binding site [chemical binding]; other site 512562001982 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 512562001983 active site 512562001984 KMSKS motif; other site 512562001985 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 512562001986 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 512562001987 active site 512562001988 NTP binding site [chemical binding]; other site 512562001989 metal binding triad [ion binding]; metal-binding site 512562001990 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 512562001991 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 512562001992 Ligand Binding Site [chemical binding]; other site 512562001993 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562001994 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 512562001995 nickel binding site [ion binding]; other site 512562001996 putative substrate-binding site; other site 512562001997 Ni,Fe-hydrogenase I cytochrome b subunit [Energy production and conversion]; Region: HyaC; COG1969 512562001998 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 512562001999 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 512562002000 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 512562002001 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 512562002002 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 512562002003 Uncharacterized conserved protein [Function unknown]; Region: COG1479 512562002004 Protein of unknown function DUF262; Region: DUF262; pfam03235 512562002005 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 512562002006 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 512562002007 Sel1-like repeats; Region: SEL1; smart00671 512562002008 Sel1-like repeats; Region: SEL1; smart00671 512562002009 Sel1 repeat; Region: Sel1; cl02723 512562002010 Sel1-like repeats; Region: SEL1; smart00671 512562002011 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 512562002012 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 512562002013 putative trimer interface [polypeptide binding]; other site 512562002014 putative CoA binding site [chemical binding]; other site 512562002015 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 512562002016 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 512562002017 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 512562002018 hypothetical protein; Provisional; Region: PRK05839 512562002019 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 512562002020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 512562002021 homodimer interface [polypeptide binding]; other site 512562002022 catalytic residue [active] 512562002023 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 512562002024 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 512562002025 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 512562002026 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 512562002027 MutS2 family protein; Region: mutS2; TIGR01069 512562002028 ATPase domain of DNA mismatch repair MUTS family; Region: MUTSac; smart00534 512562002029 Walker A/P-loop; other site 512562002030 ATP binding site [chemical binding]; other site 512562002031 Q-loop/lid; other site 512562002032 ABC transporter signature motif; other site 512562002033 Walker B; other site 512562002034 D-loop; other site 512562002035 H-loop/switch region; other site 512562002036 Smr domain; Region: Smr; pfam01713 512562002037 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 512562002038 dimer interface [polypeptide binding]; other site 512562002039 substrate binding site [chemical binding]; other site 512562002040 metal binding sites [ion binding]; metal-binding site 512562002041 Glycosyltransferase involved in LPS biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG3306 512562002042 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 512562002043 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 512562002044 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 512562002045 adenylate kinase; Reviewed; Region: adk; PRK00279 512562002046 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 512562002047 AMP-binding site [chemical binding]; other site 512562002048 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 512562002049 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 512562002050 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 512562002051 dimer interface [polypeptide binding]; other site 512562002052 anticodon binding site; other site 512562002053 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 512562002054 homodimer interface [polypeptide binding]; other site 512562002055 motif 1; other site 512562002056 active site 512562002057 motif 2; other site 512562002058 GAD domain; Region: GAD; pfam02938 512562002059 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 512562002060 active site 512562002061 motif 3; other site 512562002062 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 512562002063 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 512562002064 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 512562002065 active site 512562002066 phosphorylation site [posttranslational modification] 512562002067 intermolecular recognition site; other site 512562002068 dimerization interface [polypeptide binding]; other site 512562002069 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 512562002070 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 512562002071 nucleotide binding pocket [chemical binding]; other site 512562002072 K-X-D-G motif; other site 512562002073 catalytic site [active] 512562002074 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 512562002075 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 512562002076 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 512562002077 Dimer interface [polypeptide binding]; other site 512562002078 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 512562002079 ABC transporter signature motif; other site 512562002080 Walker B; other site 512562002081 D-loop; other site 512562002082 H-loop/switch region; other site 512562002083 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 512562002084 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 512562002085 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 512562002086 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 512562002087 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 512562002088 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 512562002089 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 512562002090 Autotransporter beta-domain; Region: Autotransporter; pfam03797 512562002091 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562002092 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 512562002093 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 512562002094 HlyD family secretion protein; Region: HlyD_3; pfam13437 512562002095 Outer membrane efflux protein; Region: OEP; pfam02321 512562002096 Outer membrane efflux protein; Region: OEP; pfam02321 512562002097 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 512562002098 substrate binding site [chemical binding]; other site 512562002099 active site 512562002100 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 512562002101 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 512562002102 minor groove reading motif; other site 512562002103 helix-hairpin-helix signature motif; other site 512562002104 active site 512562002105 flagellin A; Reviewed; Region: PRK12584 512562002106 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 512562002107 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 512562002108 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 512562002109 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 512562002110 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 512562002111 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 512562002112 Walker A/P-loop; other site 512562002113 ATP binding site [chemical binding]; other site 512562002114 Q-loop/lid; other site 512562002115 ABC transporter signature motif; other site 512562002116 Walker B; other site 512562002117 D-loop; other site 512562002118 H-loop/switch region; other site 512562002119 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 512562002120 dimer interface [polypeptide binding]; other site 512562002121 putative CheW interface [polypeptide binding]; other site 512562002122 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 512562002123 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 512562002124 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 512562002125 catalytic residue [active] 512562002126 Transglycosylase; Region: Transgly; pfam00912 512562002127 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 512562002128 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 512562002129 tumor necrosis factor alpha-inducing protein; Reviewed; Region: PRK12303 512562002130 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 512562002131 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 512562002132 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 512562002133 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 512562002134 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 512562002135 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 512562002136 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 512562002137 TPP-binding site [chemical binding]; other site 512562002138 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 512562002139 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 512562002140 dimer interface [polypeptide binding]; other site 512562002141 PYR/PP interface [polypeptide binding]; other site 512562002142 TPP binding site [chemical binding]; other site 512562002143 substrate binding site [chemical binding]; other site 512562002144 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 512562002145 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 512562002146 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 512562002147 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 512562002148 dimerization interface [polypeptide binding]; other site 512562002149 Protein of unknown function; Region: DUF3971; pfam13116 512562002150 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 512562002151 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 512562002152 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 512562002153 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 512562002154 minor groove reading motif; other site 512562002155 helix-hairpin-helix signature motif; other site 512562002156 substrate binding pocket [chemical binding]; other site 512562002157 active site 512562002158 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 512562002159 flagellar motor switch protein; Validated; Region: PRK08433 512562002160 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 512562002161 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 512562002162 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 512562002163 active site 512562002164 substrate binding pocket [chemical binding]; other site 512562002165 dimer interface [polypeptide binding]; other site 512562002166 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 512562002167 BNR repeat-like domain; Region: BNR_2; pfam13088 512562002168 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 512562002169 Sulfatase; Region: Sulfatase; pfam00884 512562002170 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 512562002171 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 512562002172 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 512562002173 homodimer interface [polypeptide binding]; other site 512562002174 NADP binding site [chemical binding]; other site 512562002175 substrate binding site [chemical binding]; other site 512562002176 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 512562002177 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 512562002178 Catalytic site [active] 512562002179 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 512562002180 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 512562002181 Peptidase family M50; Region: Peptidase_M50; pfam02163 512562002182 active site 512562002183 putative substrate binding region [chemical binding]; other site 512562002184 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 512562002185 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 512562002186 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 512562002187 active site 512562002188 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 512562002189 multifunctional aminopeptidase A; Provisional; Region: PRK00913 512562002190 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 512562002191 interface (dimer of trimers) [polypeptide binding]; other site 512562002192 Substrate-binding/catalytic site; other site 512562002193 Zn-binding sites [ion binding]; other site 512562002194 GTP-binding protein YchF; Reviewed; Region: PRK09601 512562002195 YchF GTPase; Region: YchF; cd01900 512562002196 G1 box; other site 512562002197 GTP/Mg2+ binding site [chemical binding]; other site 512562002198 Switch I region; other site 512562002199 G2 box; other site 512562002200 Switch II region; other site 512562002201 G3 box; other site 512562002202 G4 box; other site 512562002203 G5 box; other site 512562002204 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 512562002205 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; cl15377 512562002206 FeS/SAM binding site; other site 512562002207 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 512562002208 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 512562002209 Domain of unknown function DUF20; Region: UPF0118; pfam01594 512562002210 diaminopimelate epimerase; Region: DapF; TIGR00652 512562002211 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 512562002212 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 512562002213 Predicted membrane protein [Function unknown]; Region: COG3059 512562002214 Phosphatidylinositol-specific phospholipase C, Y domain; Region: PI-PLC-Y; cl14781 512562002215 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 512562002216 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 512562002217 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 512562002218 NAD(P) binding site [chemical binding]; other site 512562002219 active site 512562002220 acyl carrier protein; Provisional; Region: acpP; PRK00982 512562002221 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 512562002222 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 512562002223 dimer interface [polypeptide binding]; other site 512562002224 active site 512562002225 acetyl-CoA carboxylase, carboxyl transferase, alpha subunit; Region: accA; TIGR00513 512562002226 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 512562002227 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 512562002228 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 512562002229 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 512562002230 Predicted methyltransferases [General function prediction only]; Region: COG0313 512562002231 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 512562002232 putative SAM binding site [chemical binding]; other site 512562002233 putative homodimer interface [polypeptide binding]; other site 512562002234 Ribosomal protein L31; Region: Ribosomal_L31; pfam01197 512562002235 transcription termination factor Rho; Provisional; Region: rho; PRK09376 512562002236 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 512562002237 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 512562002238 RNA binding site [nucleotide binding]; other site 512562002239 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 512562002240 multimer interface [polypeptide binding]; other site 512562002241 Walker A motif; other site 512562002242 ATP binding site [chemical binding]; other site 512562002243 Walker B motif; other site 512562002244 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 512562002245 CagA exotoxin; Region: CagA; pfam03507 512562002246 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 512562002247 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 512562002248 prolyl-tRNA synthetase; Provisional; Region: PRK08661 512562002249 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 512562002250 CagA exotoxin; Region: CagA; pfam03507 512562002251 Cag pathogenicity island protein Cag12; Region: Cag12; pfam13117 512562002252 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 512562002253 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 512562002254 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 512562002255 VirB7 interaction site; other site 512562002256 DC-EC Repeat; Region: CagY_M; pfam07337 512562002257 DC-EC Repeat; Region: CagY_M; pfam07337 512562002258 DC-EC Repeat; Region: CagY_M; pfam07337 512562002259 DC-EC Repeat; Region: CagY_M; pfam07337 512562002260 DC-EC Repeat; Region: CagY_M; pfam07337 512562002261 DC-EC Repeat; Region: CagY_M; pfam07337 512562002262 DC-EC Repeat; Region: CagY_M; pfam07337 512562002263 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 512562002264 CagZ; Region: CagZ; pfam09053 512562002265 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 512562002266 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 512562002267 ATP binding site [chemical binding]; other site 512562002268 Walker A motif; other site 512562002269 hexamer interface [polypeptide binding]; other site 512562002270 Walker B motif; other site 512562002271 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 512562002272 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 512562002273 Walker A motif; other site 512562002274 ATP binding site [chemical binding]; other site 512562002275 Walker B motif; other site 512562002276 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 512562002277 Sel1-like repeats; Region: SEL1; smart00671 512562002278 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 512562002279 GTPase [General function prediction only]; Region: Era; COG1159 512562002280 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 512562002281 G1 box; other site 512562002282 GTP/Mg2+ binding site [chemical binding]; other site 512562002283 Switch I region; other site 512562002284 G2 box; other site 512562002285 Switch II region; other site 512562002286 G3 box; other site 512562002287 G4 box; other site 512562002288 G5 box; other site 512562002289 KH domain; Region: KH_2; pfam07650 512562002290 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 512562002291 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 512562002292 Walker A motif; other site 512562002293 ATP binding site [chemical binding]; other site 512562002294 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 512562002295 Walker B motif; other site 512562002296 arginine finger; other site 512562002297 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 512562002298 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 512562002299 active site 512562002300 HslU subunit interaction site [polypeptide binding]; other site 512562002301 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 512562002302 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 512562002303 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 512562002304 Uncharacterized conserved protein [Function unknown]; Region: COG1479 512562002305 Protein of unknown function DUF262; Region: DUF262; pfam03235 512562002306 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 512562002307 Uncharacterized conserved protein [Function unknown]; Region: COG3586 512562002308 glutamine synthetase, type I; Region: GlnA; TIGR00653 512562002309 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 512562002310 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 512562002311 dihydrodipicolinate reductase; Region: dapB; TIGR00036 512562002312 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 512562002313 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 512562002314 FAD binding domain; Region: FAD_binding_4; pfam01565 512562002315 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 512562002316 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 512562002317 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 512562002318 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 512562002319 dimer interface [polypeptide binding]; other site 512562002320 ADP-ribose binding site [chemical binding]; other site 512562002321 active site 512562002322 nudix motif; other site 512562002323 metal binding site [ion binding]; metal-binding site 512562002324 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 512562002325 Peptidase family M23; Region: Peptidase_M23; pfam01551 512562002326 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 512562002327 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 512562002328 Mg2+ binding site [ion binding]; other site 512562002329 G-X-G motif; other site 512562002330 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 512562002331 anchoring element; other site 512562002332 dimer interface [polypeptide binding]; other site 512562002333 ATP binding site [chemical binding]; other site 512562002334 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 512562002335 active site 512562002336 putative metal-binding site [ion binding]; other site 512562002337 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 512562002338 DNA polymerase III, beta subunit; Region: dnan; TIGR00663 512562002339 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 512562002340 putative DNA binding surface [nucleotide binding]; other site 512562002341 dimer interface [polypeptide binding]; other site 512562002342 beta-clamp/translesion DNA polymerase binding surface; other site 512562002343 beta-clamp/clamp loader binding surface; other site 512562002344 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 512562002345 dimerization interface [polypeptide binding]; other site 512562002346 substrate binding site [chemical binding]; other site 512562002347 active site 512562002348 calcium binding site [ion binding]; other site 512562002349 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 512562002350 Na2 binding site [ion binding]; other site 512562002351 putative substrate binding site 1 [chemical binding]; other site 512562002352 Na binding site 1 [ion binding]; other site 512562002353 putative substrate binding site 2 [chemical binding]; other site 512562002354 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 512562002355 Na2 binding site [ion binding]; other site 512562002356 putative substrate binding site 1 [chemical binding]; other site 512562002357 Na binding site 1 [ion binding]; other site 512562002358 putative substrate binding site 2 [chemical binding]; other site 512562002359 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 512562002360 active site 512562002361 Protein of unknown function (DUF493); Region: DUF493; pfam04359 512562002362 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 512562002363 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 512562002364 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 512562002365 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 512562002366 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 512562002367 Mg++ binding site [ion binding]; other site 512562002368 putative catalytic motif [active] 512562002369 putative substrate binding site [chemical binding]; other site 512562002370 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 512562002371 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 512562002372 Cation transport protein; Region: TrkH; cl17365 512562002373 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 512562002374 TrkA-N domain; Region: TrkA_N; pfam02254 512562002375 TrkA-C domain; Region: TrkA_C; pfam02080 512562002376 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 512562002377 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 512562002378 active site 512562002379 DNA binding site [nucleotide binding] 512562002380 Int/Topo IB signature motif; other site 512562002381 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 512562002382 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 512562002383 Methyltransferase domain; Region: Methyltransf_26; pfam13659 512562002384 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 512562002385 DEAD-like helicases superfamily; Region: DEXDc; smart00487 512562002386 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 512562002387 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 512562002388 helicase superfamily c-terminal domain; Region: HELICc; smart00490 512562002389 nucleotide binding region [chemical binding]; other site 512562002390 ATP-binding site [chemical binding]; other site 512562002391 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 512562002392 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 512562002393 P-loop; other site 512562002394 Magnesium ion binding site [ion binding]; other site 512562002395 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 512562002396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 512562002397 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 512562002398 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 512562002399 Walker A motif; other site 512562002400 ATP binding site [chemical binding]; other site 512562002401 Walker B motif; other site 512562002402 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 512562002403 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 512562002404 Walker A motif; other site 512562002405 ATP binding site [chemical binding]; other site 512562002406 Walker B motif; other site 512562002407 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 512562002408 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 512562002409 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 512562002410 VirB7 interaction site; other site 512562002411 VirB8 protein; Region: VirB8; cl01500 512562002412 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 512562002413 TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli...; Region: TOPRIM_TopoIA; cd01028 512562002414 active site 512562002415 interdomain interaction site; other site 512562002416 putative metal-binding site [ion binding]; other site 512562002417 nucleotide binding site [chemical binding]; other site 512562002418 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 512562002419 domain I; other site 512562002420 DNA binding groove [nucleotide binding] 512562002421 phosphate binding site [ion binding]; other site 512562002422 domain II; other site 512562002423 domain III; other site 512562002424 nucleotide binding site [chemical binding]; other site 512562002425 catalytic site [active] 512562002426 domain IV; other site 512562002427 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 512562002428 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 512562002429 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 512562002430 Domain of unknown function DUF87; Region: DUF87; pfam01935 512562002431 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 512562002432 Toprim-like; Region: Toprim_2; pfam13155 512562002433 Holliday junction DNA helicase, RuvA subunit; Region: ruvA; TIGR00084 512562002434 RuvA N terminal domain; Region: RuvA_N; pfam01330 512562002435 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 512562002436 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 512562002437 MviN-like protein; Region: MVIN; pfam03023 512562002438 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 512562002439 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 512562002440 active site 512562002441 HIGH motif; other site 512562002442 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 512562002443 KMSKS motif; other site 512562002444 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 512562002445 tRNA binding surface [nucleotide binding]; other site 512562002446 anticodon binding site; other site 512562002447 Vacuolating cyotoxin; Region: VacA; pfam02691 512562002448 Autotransporter beta-domain; Region: Autotransporter; pfam03797 512562002449 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 512562002450 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 512562002451 Walker A/P-loop; other site 512562002452 ATP binding site [chemical binding]; other site 512562002453 Q-loop/lid; other site 512562002454 ABC transporter signature motif; other site 512562002455 Walker B; other site 512562002456 D-loop; other site 512562002457 H-loop/switch region; other site 512562002458 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 512562002459 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 512562002460 ABC-ATPase subunit interface; other site 512562002461 dimer interface [polypeptide binding]; other site 512562002462 putative PBP binding regions; other site 512562002463 short chain dehydrogenase; Validated; Region: PRK06182 512562002464 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 512562002465 NADP binding site [chemical binding]; other site 512562002466 active site 512562002467 steroid binding site; other site 512562002468 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 512562002469 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 512562002470 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562002471 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 512562002472 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 512562002473 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 512562002474 hydrogenase accessory protein HypB; Region: hypB; TIGR00073 512562002475 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 512562002476 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 512562002477 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 512562002478 propionate/acetate kinase; Provisional; Region: PRK12379 512562002479 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 512562002480 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 512562002481 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 512562002482 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 512562002483 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 512562002484 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 512562002485 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 512562002486 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 512562002487 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 512562002488 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 512562002489 S-adenosylmethionine binding site [chemical binding]; other site 512562002490 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 512562002491 Part of AAA domain; Region: AAA_19; pfam13245 512562002492 Family description; Region: UvrD_C_2; pfam13538 512562002493 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562002494 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562002495 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 512562002496 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 512562002497 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 512562002498 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 512562002499 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 512562002500 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 512562002501 ATP-grasp domain; Region: ATP-grasp_4; cl17255 512562002502 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 512562002503 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 512562002504 ATP-grasp domain; Region: ATP-grasp_4; cl17255 512562002505 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 512562002506 IMP binding site; other site 512562002507 dimer interface [polypeptide binding]; other site 512562002508 interdomain contacts; other site 512562002509 partial ornithine binding site; other site 512562002510 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 512562002511 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 512562002512 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 512562002513 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 512562002514 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 512562002515 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562002516 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 512562002517 active site 1 [active] 512562002518 dimer interface [polypeptide binding]; other site 512562002519 hexamer interface [polypeptide binding]; other site 512562002520 active site 2 [active] 512562002521 recombination protein RecR; Region: recR; TIGR00615 512562002522 RecR protein; Region: RecR; pfam02132 512562002523 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 512562002524 putative active site [active] 512562002525 putative metal-binding site [ion binding]; other site 512562002526 tetramer interface [polypeptide binding]; other site 512562002527 tRNA pseudouridine synthase, TruD family; Region: tRNA_TruD_broad; TIGR00094 512562002528 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 512562002529 Permutation of conserved domain; other site 512562002530 active site 512562002531 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 512562002532 heat shock protein HtpX; Provisional; Region: PRK02870 512562002533 GTP cyclohydrolase I; Region: folE; TIGR00063 512562002534 GTP cyclohydrolase I; Provisional; Region: PLN03044 512562002535 active site 512562002536 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 512562002537 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 512562002538 substrate binding pocket [chemical binding]; other site 512562002539 chain length determination region; other site 512562002540 substrate-Mg2+ binding site; other site 512562002541 catalytic residues [active] 512562002542 aspartate-rich region 1; other site 512562002543 active site lid residues [active] 512562002544 aspartate-rich region 2; other site 512562002545 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 512562002546 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 512562002547 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 512562002548 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 512562002549 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 512562002550 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 512562002551 Coenzyme A binding pocket [chemical binding]; other site 512562002552 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 512562002553 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562002554 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 512562002555 putative substrate translocation pore; other site 512562002556 Uncharacterized conserved protein [Function unknown]; Region: COG1479 512562002557 Protein of unknown function DUF262; Region: DUF262; pfam03235 512562002558 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 512562002559 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 512562002560 dimer interface [polypeptide binding]; other site 512562002561 conserved gate region; other site 512562002562 putative PBP binding loops; other site 512562002563 ABC-ATPase subunit interface; other site 512562002564 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 512562002565 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 512562002566 substrate binding pocket [chemical binding]; other site 512562002567 membrane-bound complex binding site; other site 512562002568 hinge residues; other site 512562002569 alanine racemase; Region: alr; TIGR00492 512562002570 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 512562002571 active site 512562002572 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 512562002573 dimer interface [polypeptide binding]; other site 512562002574 substrate binding site [chemical binding]; other site 512562002575 catalytic residues [active] 512562002576 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 512562002577 amino acid carrier protein; Region: agcS; TIGR00835 512562002578 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 512562002579 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 512562002580 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 512562002581 homotrimer interaction site [polypeptide binding]; other site 512562002582 putative active site [active] 512562002583 Uncharacterized conserved protein [Function unknown]; Region: COG1576 512562002584 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 512562002585 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 512562002586 putative recombination protein RecO; Provisional; Region: PRK13908 512562002587 competence/damage-inducible protein CinA C-terminal domain; Region: cinA_cterm; TIGR00199 512562002588 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 512562002589 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 512562002590 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 512562002591 active site 512562002592 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 512562002593 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 512562002594 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 512562002595 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 512562002596 Putative zinc ribbon domain; Region: DUF164; pfam02591 512562002597 dinuclear metal center protein, YbgI/SA1388 family; Region: YbgI_SA1388; TIGR00486 512562002598 Uncharacterized conserved protein [Function unknown]; Region: COG0327 512562002599 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 512562002600 dimer interface [polypeptide binding]; other site 512562002601 motif 1; other site 512562002602 active site 512562002603 motif 2; other site 512562002604 motif 3; other site 512562002605 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 512562002606 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 512562002607 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 512562002608 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 512562002609 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 512562002610 G1 box; other site 512562002611 GTP/Mg2+ binding site [chemical binding]; other site 512562002612 G2 box; other site 512562002613 Switch I region; other site 512562002614 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 512562002615 G3 box; other site 512562002616 Switch II region; other site 512562002617 G4 box; other site 512562002618 Uncharacterized virulence-associated protein D [Function unknown]; Region: VapD; COG3309 512562002619 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 512562002620 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 512562002621 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 512562002622 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 512562002623 Outer membrane efflux protein; Region: OEP; pfam02321 512562002624 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 512562002625 phosphoglyceromutase; Provisional; Region: PRK05434 512562002626 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 512562002627 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, C subunit; Region: gatC; TIGR00135 512562002628 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 512562002629 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 512562002630 inhibitor-cofactor binding pocket; inhibition site 512562002631 pyridoxal 5'-phosphate binding site [chemical binding]; other site 512562002632 catalytic residue [active] 512562002633 SurA N-terminal domain; Region: SurA_N_3; cl07813 512562002634 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 512562002635 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 512562002636 cell division protein FtsA; Region: ftsA; TIGR01174 512562002637 Cell division protein FtsA; Region: FtsA; smart00842 512562002638 Cell division protein FtsA; Region: FtsA; pfam14450 512562002639 cell division protein FtsZ; Validated; Region: PRK09330 512562002640 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 512562002641 nucleotide binding site [chemical binding]; other site 512562002642 SulA interaction site; other site 512562002643 Mechanosensitive ion channel; Region: MS_channel; pfam00924 512562002644 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 512562002645 generic binding surface II; other site 512562002646 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 512562002647 A nuclease of the HNH/ENDO VII superfamily with conserved LHH; Region: LHH; pfam14411 512562002648 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 512562002649 metal ion-dependent adhesion site (MIDAS); other site 512562002650 Uncharacterized conserved protein [Function unknown]; Region: COG1479 512562002651 Protein of unknown function DUF262; Region: DUF262; pfam03235 512562002652 Protein of unknown function DUF262; Region: DUF262; pfam03235 512562002653 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 512562002654 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 512562002655 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 512562002656 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 512562002657 active site 512562002658 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 512562002659 catalytic residues [active] 512562002660 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 512562002661 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 512562002662 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 512562002663 putative ADP-binding pocket [chemical binding]; other site 512562002664 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 512562002665 active site 2 [active] 512562002666 active site 1 [active] 512562002667 Methyltransferase domain; Region: Methyltransf_23; pfam13489 512562002668 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 512562002669 S-adenosylmethionine binding site [chemical binding]; other site 512562002670 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 512562002671 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 512562002672 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 512562002673 active site 512562002674 HIGH motif; other site 512562002675 KMSKS motif; other site 512562002676 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 512562002677 anticodon binding site; other site 512562002678 tRNA binding surface [nucleotide binding]; other site 512562002679 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 512562002680 dimer interface [polypeptide binding]; other site 512562002681 putative tRNA-binding site [nucleotide binding]; other site 512562002682 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 512562002683 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 512562002684 S-adenosylmethionine binding site [chemical binding]; other site 512562002685 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 512562002686 Mechanosensitive ion channel; Region: MS_channel; pfam00924 512562002687 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 512562002688 GMP synthase; Reviewed; Region: guaA; PRK00074 512562002689 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 512562002690 AMP/PPi binding site [chemical binding]; other site 512562002691 candidate oxyanion hole; other site 512562002692 catalytic triad [active] 512562002693 potential glutamine specificity residues [chemical binding]; other site 512562002694 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 512562002695 ATP Binding subdomain [chemical binding]; other site 512562002696 Ligand Binding sites [chemical binding]; other site 512562002697 Dimerization subdomain; other site 512562002698 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 512562002699 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 512562002700 molybdopterin cofactor binding site [chemical binding]; other site 512562002701 substrate binding site [chemical binding]; other site 512562002702 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 512562002703 molybdopterin cofactor binding site; other site 512562002704 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 512562002705 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 512562002706 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 512562002707 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 512562002708 catalytic residue [active] 512562002709 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 512562002710 nucleotide binding site/active site [active] 512562002711 HIT family signature motif; other site 512562002712 catalytic residue [active] 512562002713 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 512562002714 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 512562002715 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 512562002716 dimer interface [polypeptide binding]; other site 512562002717 motif 1; other site 512562002718 active site 512562002719 motif 2; other site 512562002720 motif 3; other site 512562002721 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 512562002722 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 512562002723 putative tRNA-binding site [nucleotide binding]; other site 512562002724 tRNA synthetase B5 domain; Region: B5; pfam03484 512562002725 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 512562002726 dimer interface [polypeptide binding]; other site 512562002727 motif 1; other site 512562002728 motif 3; other site 512562002729 motif 2; other site 512562002730 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 512562002731 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 512562002732 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 512562002733 hinge; other site 512562002734 active site 512562002735 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 512562002736 LytB protein; Region: LYTB; pfam02401 512562002737 ribosomal protein S1; Region: rpsA; TIGR00717 512562002738 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 512562002739 RNA binding site [nucleotide binding]; other site 512562002740 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 512562002741 RNA binding site [nucleotide binding]; other site 512562002742 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 512562002743 RNA binding site [nucleotide binding]; other site 512562002744 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 512562002745 RNA binding site [nucleotide binding]; other site 512562002746 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 512562002747 RNA binding site [nucleotide binding]; other site 512562002748 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 512562002749 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 512562002750 ligand binding site [chemical binding]; other site 512562002751 NAD binding site [chemical binding]; other site 512562002752 dimerization interface [polypeptide binding]; other site 512562002753 catalytic site [active] 512562002754 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 512562002755 putative L-serine binding site [chemical binding]; other site 512562002756 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 512562002757 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 512562002758 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 512562002759 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 512562002760 catalytic residue [active] 512562002761 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 512562002762 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 512562002763 putative active site [active] 512562002764 putative metal binding site [ion binding]; other site 512562002765 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 512562002766 putative CheA interaction surface; other site 512562002767 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 512562002768 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 512562002769 active site 512562002770 phosphorylation site [posttranslational modification] 512562002771 intermolecular recognition site; other site 512562002772 dimerization interface [polypeptide binding]; other site 512562002773 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 512562002774 putative binding surface; other site 512562002775 active site 512562002776 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 512562002777 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 512562002778 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 512562002779 ATP binding site [chemical binding]; other site 512562002780 Mg2+ binding site [ion binding]; other site 512562002781 G-X-G motif; other site 512562002782 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 512562002783 Response regulator receiver domain; Region: Response_reg; pfam00072 512562002784 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 512562002785 active site 512562002786 phosphorylation site [posttranslational modification] 512562002787 intermolecular recognition site; other site 512562002788 dimerization interface [polypeptide binding]; other site 512562002789 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 512562002790 putative CheA interaction surface; other site 512562002791 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 512562002792 dimer interface [polypeptide binding]; other site 512562002793 catalytic triad [active] 512562002794 peroxidatic and resolving cysteines [active] 512562002795 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 512562002796 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 512562002797 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 512562002798 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 512562002799 S-adenosylmethionine binding site [chemical binding]; other site 512562002800 primosome assembly protein PriA; Validated; Region: PRK05580 512562002801 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 512562002802 ATP binding site [chemical binding]; other site 512562002803 putative Mg++ binding site [ion binding]; other site 512562002804 helicase superfamily c-terminal domain; Region: HELICc; smart00490 512562002805 Sporulation related domain; Region: SPOR; pfam05036 512562002806 HemK family putative methylases; Region: hemK_fam; TIGR00536 512562002807 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 512562002808 glutamate dehydrogenase; Provisional; Region: PRK09414 512562002809 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 512562002810 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 512562002811 NAD(P) binding site [chemical binding]; other site 512562002812 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 512562002813 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 512562002814 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 512562002815 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 512562002816 catalytic residues [active] 512562002817 ferrochelatase; Region: hemH; TIGR00109 512562002818 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 512562002819 C-terminal domain interface [polypeptide binding]; other site 512562002820 active site 512562002821 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 512562002822 active site 512562002823 N-terminal domain interface [polypeptide binding]; other site 512562002824 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 512562002825 RNA methyltransferase, RsmE family; Region: TIGR00046 512562002826 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562002827 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 512562002828 trimer interface [polypeptide binding]; other site 512562002829 active site 512562002830 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 512562002831 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 512562002832 carboxyltransferase (CT) interaction site; other site 512562002833 biotinylation site [posttranslational modification]; other site 512562002834 biotin carboxylase; Validated; Region: PRK08462 512562002835 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 512562002836 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 512562002837 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 512562002838 Methyltransferase domain; Region: Methyltransf_26; pfam13659 512562002839 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 512562002840 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 512562002841 inhibitor-cofactor binding pocket; inhibition site 512562002842 pyridoxal 5'-phosphate binding site [chemical binding]; other site 512562002843 catalytic residue [active] 512562002844 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 512562002845 dimer interface [polypeptide binding]; other site 512562002846 putative radical transfer pathway; other site 512562002847 diiron center [ion binding]; other site 512562002848 tyrosyl radical; other site 512562002849 protein-L-isoaspartate(D-aspartate) O-methyltransferase; Region: pimt; TIGR00080 512562002850 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 512562002851 S-adenosylmethionine binding site [chemical binding]; other site 512562002852 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 512562002853 Predicted permeases [General function prediction only]; Region: COG0795 512562002854 tRNA pseudouridine(38-40) synthase; Region: hisT_truA; TIGR00071 512562002855 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 512562002856 dimerization interface 3.5A [polypeptide binding]; other site 512562002857 active site 512562002858 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 512562002859 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 512562002860 NAD binding site [chemical binding]; other site 512562002861 homodimer interface [polypeptide binding]; other site 512562002862 active site 512562002863 substrate binding site [chemical binding]; other site 512562002864 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 512562002865 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 512562002866 putative NAD(P) binding site [chemical binding]; other site 512562002867 homodimer interface [polypeptide binding]; other site 512562002868 homotetramer interface [polypeptide binding]; other site 512562002869 active site 512562002870 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 512562002871 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 512562002872 binding surface 512562002873 TPR motif; other site 512562002874 Sel1-like repeats; Region: SEL1; smart00671 512562002875 Sel1 repeat; Region: Sel1; cl02723 512562002876 Sel1-like repeats; Region: SEL1; smart00671 512562002877 Entner-Doudoroff aldolase; Region: eda; TIGR01182 512562002878 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 512562002879 active site 512562002880 intersubunit interface [polypeptide binding]; other site 512562002881 catalytic residue [active] 512562002882 phosphogluconate dehydratase; Validated; Region: PRK09054 512562002883 6-phosphogluconate dehydratase; Region: edd; TIGR01196 512562002884 Glucose-6-phosphate 1-dehydrogenase [Carbohydrate transport and metabolism]; Region: Zwf; COG0364 512562002885 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 512562002886 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 512562002887 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 512562002888 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 512562002889 putative active site [active] 512562002890 glucokinase, proteobacterial type; Region: glk; TIGR00749 512562002891 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 512562002892 nucleotide binding site [chemical binding]; other site 512562002893 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 512562002894 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 512562002895 putative NAD(P) binding site [chemical binding]; other site 512562002896 putative substrate binding site [chemical binding]; other site 512562002897 catalytic Zn binding site [ion binding]; other site 512562002898 structural Zn binding site [ion binding]; other site 512562002899 dimer interface [polypeptide binding]; other site 512562002900 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 512562002901 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 512562002902 active site 512562002903 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 512562002904 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 512562002905 active site 512562002906 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562002907 pyruvate flavodoxin oxidoreductase subunit gamma; Validated; Region: PRK05844 512562002908 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 512562002909 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 512562002910 4Fe-4S binding domain; Region: Fer4; pfam00037 512562002911 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 512562002912 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 512562002913 dimer interface [polypeptide binding]; other site 512562002914 PYR/PP interface [polypeptide binding]; other site 512562002915 TPP binding site [chemical binding]; other site 512562002916 substrate binding site [chemical binding]; other site 512562002917 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 512562002918 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 512562002919 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 512562002920 TPP-binding site [chemical binding]; other site 512562002921 putative dimer interface [polypeptide binding]; other site 512562002922 adenylosuccinate lyase; Provisional; Region: PRK08470 512562002923 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 512562002924 tetramer interface [polypeptide binding]; other site 512562002925 active site 512562002926 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 512562002927 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562002928 excinuclease ABC subunit B; Provisional; Region: PRK05298 512562002929 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 512562002930 ATP binding site [chemical binding]; other site 512562002931 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 512562002932 putative Mg++ binding site [ion binding]; other site 512562002933 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 512562002934 nucleotide binding region [chemical binding]; other site 512562002935 ATP-binding site [chemical binding]; other site 512562002936 Ultra-violet resistance protein B; Region: UvrB; pfam12344 512562002937 UvrB/uvrC motif; Region: UVR; pfam02151 512562002938 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 512562002939 Protein of unknown function (DUF3519); Region: DUF3519; pfam12033 512562002940 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 512562002941 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 512562002942 binding surface 512562002943 TPR motif; other site 512562002944 Sel1-like repeats; Region: SEL1; smart00671 512562002945 Sel1-like repeats; Region: SEL1; smart00671 512562002946 Sel1 repeat; Region: Sel1; cl02723 512562002947 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 512562002948 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 512562002949 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 512562002950 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 512562002951 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 512562002952 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 512562002953 cofactor binding site; other site 512562002954 DNA binding site [nucleotide binding] 512562002955 substrate interaction site [chemical binding]; other site 512562002956 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 512562002957 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 512562002958 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 512562002959 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 512562002960 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 512562002961 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 512562002962 ligand binding site [chemical binding]; other site 512562002963 translocation protein TolB; Provisional; Region: tolB; PRK04043 512562002964 TolB amino-terminal domain; Region: TolB_N; pfam04052 512562002965 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 512562002966 TonB C terminal; Region: TonB_2; pfam13103 512562002967 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 512562002968 TolR protein; Region: tolR; TIGR02801 512562002969 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 512562002970 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 512562002971 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 512562002972 gamma subunit interface [polypeptide binding]; other site 512562002973 epsilon subunit interface [polypeptide binding]; other site 512562002974 LBP interface [polypeptide binding]; other site 512562002975 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 512562002976 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 512562002977 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 512562002978 alpha subunit interaction interface [polypeptide binding]; other site 512562002979 Walker A motif; other site 512562002980 ATP binding site [chemical binding]; other site 512562002981 Walker B motif; other site 512562002982 inhibitor binding site; inhibition site 512562002983 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 512562002984 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 512562002985 core domain interface [polypeptide binding]; other site 512562002986 delta subunit interface [polypeptide binding]; other site 512562002987 epsilon subunit interface [polypeptide binding]; other site 512562002988 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 512562002989 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 512562002990 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 512562002991 beta subunit interaction interface [polypeptide binding]; other site 512562002992 Walker A motif; other site 512562002993 ATP binding site [chemical binding]; other site 512562002994 Walker B motif; other site 512562002995 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 512562002996 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13431 512562002997 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 512562002998 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 512562002999 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 512562003000 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 512562003001 ParB-like nuclease domain; Region: ParB; smart00470 512562003002 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 512562003003 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 512562003004 P-loop; other site 512562003005 Magnesium ion binding site [ion binding]; other site 512562003006 biotin--protein ligase; Provisional; Region: PRK08477 512562003007 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 512562003008 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 512562003009 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 512562003010 putative active site [active] 512562003011 substrate binding site [chemical binding]; other site 512562003012 putative cosubstrate binding site; other site 512562003013 catalytic site [active] 512562003014 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 512562003015 substrate binding site [chemical binding]; other site 512562003016 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 512562003017 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 512562003018 Uncharacterized conserved protein [Function unknown]; Region: COG1432 512562003019 LabA_like proteins; Region: LabA_like; cd06167 512562003020 putative metal binding site [ion binding]; other site 512562003021 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 512562003022 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 512562003023 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 512562003024 RimM N-terminal domain; Region: RimM; pfam01782 512562003025 PRC-barrel domain; Region: PRC; pfam05239 512562003026 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 512562003027 KH domain; Region: KH_4; pfam13083 512562003028 G-X-X-G motif; other site 512562003029 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 512562003030 signal recognition particle protein; Provisional; Region: PRK10867 512562003031 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 512562003032 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 512562003033 P loop; other site 512562003034 GTP binding site [chemical binding]; other site 512562003035 Signal peptide binding domain; Region: SRP_SPB; pfam02978 512562003036 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 512562003037 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 512562003038 active site 512562003039 HIGH motif; other site 512562003040 nucleotide binding site [chemical binding]; other site 512562003041 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 512562003042 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 512562003043 active site 512562003044 KMSKS motif; other site 512562003045 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 512562003046 anticodon binding site; other site 512562003047 flagellar assembly protein FliW; Provisional; Region: PRK13283 512562003048 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 512562003049 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 512562003050 active site 512562003051 homodimer interface [polypeptide binding]; other site 512562003052 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562003053 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562003054 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 512562003055 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 512562003056 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 512562003057 Fic/DOC family; Region: Fic; pfam02661 512562003058 metal-binding heat shock protein; Provisional; Region: PRK00016 512562003059 flavodoxin FldA; Validated; Region: PRK09267 512562003060 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 512562003061 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 512562003062 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 512562003063 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 512562003064 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 512562003065 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 512562003066 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 512562003067 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 512562003068 active site 512562003069 dimer interface [polypeptide binding]; other site 512562003070 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 512562003071 dimer interface [polypeptide binding]; other site 512562003072 active site 512562003073 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 512562003074 carbon starvation protein A; Provisional; Region: PRK15015 512562003075 Carbon starvation protein CstA; Region: CstA; pfam02554 512562003076 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 512562003077 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 512562003078 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 512562003079 dimer interface [polypeptide binding]; other site 512562003080 conserved gate region; other site 512562003081 putative PBP binding loops; other site 512562003082 ABC-ATPase subunit interface; other site 512562003083 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 512562003084 dimer interface [polypeptide binding]; other site 512562003085 conserved gate region; other site 512562003086 putative PBP binding loops; other site 512562003087 ABC-ATPase subunit interface; other site 512562003088 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 512562003089 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 512562003090 Walker A/P-loop; other site 512562003091 ATP binding site [chemical binding]; other site 512562003092 Q-loop/lid; other site 512562003093 ABC transporter signature motif; other site 512562003094 Walker B; other site 512562003095 D-loop; other site 512562003096 H-loop/switch region; other site 512562003097 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 512562003098 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 512562003099 substrate binding pocket [chemical binding]; other site 512562003100 membrane-bound complex binding site; other site 512562003101 hinge residues; other site 512562003102 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 512562003103 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 512562003104 putative substrate translocation pore; other site 512562003105 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 512562003106 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562003107 purine-nucleoside phosphorylase, family 1 (deoD); Region: deoD; TIGR00107 512562003108 phosphopentomutase; Provisional; Region: PRK05362 512562003109 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 512562003110 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 512562003111 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 512562003112 Nucleoside recognition; Region: Gate; pfam07670 512562003113 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 512562003114 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 512562003115 Major Facilitator Superfamily; Region: MFS_1; pfam07690 512562003116 putative substrate translocation pore; other site 512562003117 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 512562003118 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 512562003119 Ligand Binding Site [chemical binding]; other site 512562003120 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 512562003121 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 512562003122 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 512562003123 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 512562003124 putative arabinose transporter; Provisional; Region: PRK03545 512562003125 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 512562003126 putative substrate translocation pore; other site 512562003127 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 512562003128 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 512562003129 active site 512562003130 zinc binding site [ion binding]; other site 512562003131 aspartate-semialdehyde dehydrogenase (peptidoglycan organisms); Region: asd_B; TIGR01296 512562003132 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 512562003133 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 512562003134 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 512562003135 dimer interface [polypeptide binding]; other site 512562003136 motif 1; other site 512562003137 active site 512562003138 motif 2; other site 512562003139 motif 3; other site 512562003140 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 512562003141 anticodon binding site; other site 512562003142 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 512562003143 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 512562003144 putative active site [active] 512562003145 elongation factor G; Reviewed; Region: PRK00007 512562003146 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 512562003147 G1 box; other site 512562003148 putative GEF interaction site [polypeptide binding]; other site 512562003149 GTP/Mg2+ binding site [chemical binding]; other site 512562003150 Switch I region; other site 512562003151 G2 box; other site 512562003152 G3 box; other site 512562003153 Switch II region; other site 512562003154 G4 box; other site 512562003155 G5 box; other site 512562003156 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 512562003157 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 512562003158 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 512562003159 30S ribosomal protein S7; Validated; Region: PRK05302 512562003160 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 512562003161 S17 interaction site [polypeptide binding]; other site 512562003162 S8 interaction site; other site 512562003163 16S rRNA interaction site [nucleotide binding]; other site 512562003164 streptomycin interaction site [chemical binding]; other site 512562003165 23S rRNA interaction site [nucleotide binding]; other site 512562003166 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 512562003167 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 512562003168 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 512562003169 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 512562003170 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 512562003171 RPB11 interaction site [polypeptide binding]; other site 512562003172 RPB12 interaction site [polypeptide binding]; other site 512562003173 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 512562003174 RPB3 interaction site [polypeptide binding]; other site 512562003175 RPB1 interaction site [polypeptide binding]; other site 512562003176 RPB11 interaction site [polypeptide binding]; other site 512562003177 RPB10 interaction site [polypeptide binding]; other site 512562003178 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 512562003179 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 512562003180 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 512562003181 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 512562003182 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 512562003183 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 512562003184 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 512562003185 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 512562003186 DNA binding site [nucleotide binding] 512562003187 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 512562003188 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 512562003189 core dimer interface [polypeptide binding]; other site 512562003190 peripheral dimer interface [polypeptide binding]; other site 512562003191 L10 interface [polypeptide binding]; other site 512562003192 L11 interface [polypeptide binding]; other site 512562003193 putative EF-Tu interaction site [polypeptide binding]; other site 512562003194 putative EF-G interaction site [polypeptide binding]; other site 512562003195 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 512562003196 23S rRNA interface [nucleotide binding]; other site 512562003197 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 512562003198 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 512562003199 mRNA/rRNA interface [nucleotide binding]; other site 512562003200 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 512562003201 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 512562003202 23S rRNA interface [nucleotide binding]; other site 512562003203 L7/L12 interface [polypeptide binding]; other site 512562003204 putative thiostrepton binding site; other site 512562003205 L25 interface [polypeptide binding]; other site 512562003206 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 512562003207 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 512562003208 putative homodimer interface [polypeptide binding]; other site 512562003209 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 512562003210 heterodimer interface [polypeptide binding]; other site 512562003211 homodimer interface [polypeptide binding]; other site 512562003212 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 512562003213 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 512562003214 elongation factor Tu; Reviewed; Region: PRK00049 512562003215 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 512562003216 G1 box; other site 512562003217 GEF interaction site [polypeptide binding]; other site 512562003218 GTP/Mg2+ binding site [chemical binding]; other site 512562003219 Switch I region; other site 512562003220 G2 box; other site 512562003221 G3 box; other site 512562003222 Switch II region; other site 512562003223 G4 box; other site 512562003224 G5 box; other site 512562003225 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 512562003226 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 512562003227 Antibiotic Binding Site [chemical binding]; other site 512562003228 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 512562003229 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 512562003230 Walker A/P-loop; other site 512562003231 ATP binding site [chemical binding]; other site 512562003232 Q-loop/lid; other site 512562003233 ABC transporter signature motif; other site 512562003234 Walker B; other site 512562003235 D-loop; other site 512562003236 H-loop/switch region; other site 512562003237 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 512562003238 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 512562003239 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 512562003240 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; pfam02086 512562003241 Helicobacter pylori IceA2 protein; Region: IceA2; pfam05862 512562003242 serine O-acetyltransferase; Region: cysE; TIGR01172 512562003243 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 512562003244 trimer interface [polypeptide binding]; other site 512562003245 active site 512562003246 substrate binding site [chemical binding]; other site 512562003247 CoA binding site [chemical binding]; other site 512562003248 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 512562003249 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 512562003250 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 512562003251 oligomer interface [polypeptide binding]; other site 512562003252 RNA binding site [nucleotide binding]; other site 512562003253 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 512562003254 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 512562003255 oligomer interface [polypeptide binding]; other site 512562003256 RNA binding site [nucleotide binding]; other site 512562003257 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 512562003258 putative nucleic acid binding region [nucleotide binding]; other site 512562003259 G-X-X-G motif; other site 512562003260 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 512562003261 RNA binding site [nucleotide binding]; other site 512562003262 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG1926 512562003263 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 512562003264 Organic solvent tolerance protein; Region: OstA_C; pfam04453 512562003265 Predicted membrane protein/domain [Function unknown]; Region: COG1714 512562003266 phosphoribosylamine--glycine ligase; Region: purD; TIGR00877 512562003267 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 512562003268 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 512562003269 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 512562003270 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 512562003271 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 512562003272 Walker A/P-loop; other site 512562003273 ATP binding site [chemical binding]; other site 512562003274 Q-loop/lid; other site 512562003275 ABC transporter signature motif; other site 512562003276 Walker B; other site 512562003277 D-loop; other site 512562003278 H-loop/switch region; other site 512562003279 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 512562003280 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 512562003281 catalytic residue [active] 512562003282 putative FPP diphosphate binding site; other site 512562003283 putative FPP binding hydrophobic cleft; other site 512562003284 dimer interface [polypeptide binding]; other site 512562003285 putative IPP diphosphate binding site; other site 512562003286 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 512562003287 FAD binding domain; Region: FAD_binding_4; pfam01565 512562003288 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 512562003289 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 512562003290 active site residue [active] 512562003291 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 512562003292 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 512562003293 active site 512562003294 camphor resistance protein CrcB; Provisional; Region: PRK14204 512562003295 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 512562003296 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 512562003297 FeS/SAM binding site; other site 512562003298 HemN C-terminal domain; Region: HemN_C; pfam06969 512562003299 Cytochrome c553 [Energy production and conversion]; Region: COG2863 512562003300 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 512562003301 putative active site [active] 512562003302 Ap4A binding site [chemical binding]; other site 512562003303 nudix motif; other site 512562003304 putative metal binding site [ion binding]; other site 512562003305 aspartate kinase; Reviewed; Region: PRK06635 512562003306 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 512562003307 putative nucleotide binding site [chemical binding]; other site 512562003308 putative catalytic residues [active] 512562003309 putative Mg ion binding site [ion binding]; other site 512562003310 putative aspartate binding site [chemical binding]; other site 512562003311 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 512562003312 putative allosteric regulatory site; other site 512562003313 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 512562003314 putative allosteric regulatory residue; other site 512562003315 DNA replication regulator; Region: HobA; pfam12163 512562003316 DNA polymerase III subunit delta'; Validated; Region: PRK08485 512562003317 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 512562003318 dihydropteroate synthase; Region: DHPS; TIGR01496 512562003319 substrate binding pocket [chemical binding]; other site 512562003320 dimer interface [polypeptide binding]; other site 512562003321 inhibitor binding site; inhibition site 512562003322 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 512562003323 EamA-like transporter family; Region: EamA; pfam00892 512562003324 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 512562003325 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2952 512562003326 Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarA; COG0505 512562003327 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 512562003328 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 512562003329 catalytic site [active] 512562003330 subunit interface [polypeptide binding]; other site 512562003331 formamidase; Provisional; Region: amiF; PRK13287 512562003332 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 512562003333 multimer interface [polypeptide binding]; other site 512562003334 active site 512562003335 catalytic triad [active] 512562003336 dimer interface [polypeptide binding]; other site 512562003337 Maf-like protein; Reviewed; Region: PRK04056 512562003338 putative active site [active] 512562003339 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 512562003340 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 512562003341 motif 1; other site 512562003342 active site 512562003343 motif 2; other site 512562003344 motif 3; other site 512562003345 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 512562003346 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 512562003347 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562003348 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 512562003349 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 512562003350 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 512562003351 dimer interface [polypeptide binding]; other site 512562003352 ssDNA binding site [nucleotide binding]; other site 512562003353 tetramer (dimer of dimers) interface [polypeptide binding]; other site 512562003354 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 512562003355 DNA polymerase III subunit delta; Validated; Region: PRK08487 512562003356 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 512562003357 Exoribonuclease R [Transcription]; Region: VacB; COG0557 512562003358 RNB domain; Region: RNB; pfam00773 512562003359 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 512562003360 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 512562003361 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 512562003362 shikimate binding site; other site 512562003363 NAD(P) binding site [chemical binding]; other site 512562003364 Bacterial SH3 domain; Region: SH3_3; pfam08239 512562003365 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 512562003366 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 512562003367 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 512562003368 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 512562003369 active site 512562003370 HIGH motif; other site 512562003371 dimer interface [polypeptide binding]; other site 512562003372 KMSKS motif; other site 512562003373 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 512562003374 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 512562003375 S-adenosylmethionine binding site [chemical binding]; other site 512562003376 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 512562003377 ribosome recycling factor; Reviewed; Region: frr; PRK00083 512562003378 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 512562003379 hinge region; other site 512562003380 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 512562003381 active site 512562003382 RDD family; Region: RDD; pfam06271 512562003383 NAD-dependent deacetylase; Provisional; Region: PRK00481 512562003384 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 512562003385 NAD+ binding site [chemical binding]; other site 512562003386 substrate binding site [chemical binding]; other site 512562003387 Zn binding site [ion binding]; other site 512562003388 NADH dehydrogenase subunit A; Validated; Region: PRK08489 512562003389 NADH dehydrogenase subunit B; Validated; Region: PRK06411 512562003390 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 512562003391 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 512562003392 NADH dehydrogenase subunit D; Validated; Region: PRK06075 512562003393 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 512562003394 NADH dehydrogenase subunit G; Validated; Region: PRK08493 512562003395 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 512562003396 catalytic loop [active] 512562003397 iron binding site [ion binding]; other site 512562003398 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 512562003399 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 512562003400 molybdopterin cofactor binding site; other site 512562003401 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 512562003402 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 512562003403 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 512562003404 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 512562003405 4Fe-4S binding domain; Region: Fer4; cl02805 512562003406 4Fe-4S binding domain; Region: Fer4; pfam00037 512562003407 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 512562003408 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 512562003409 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 512562003410 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 512562003411 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 512562003412 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 512562003413 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 512562003414 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 512562003415 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 512562003416 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 512562003417 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 512562003418 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 512562003419 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 512562003420 active site 512562003421 substrate binding site [chemical binding]; other site 512562003422 metal binding site [ion binding]; metal-binding site 512562003423 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 512562003424 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 512562003425 substrate binding site [chemical binding]; other site 512562003426 active site 512562003427 catalytic residues [active] 512562003428 heterodimer interface [polypeptide binding]; other site 512562003429 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 512562003430 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 512562003431 pyridoxal 5'-phosphate binding site [chemical binding]; other site 512562003432 catalytic residue [active] 512562003433 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 512562003434 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 512562003435 active site 512562003436 ribulose/triose binding site [chemical binding]; other site 512562003437 phosphate binding site [ion binding]; other site 512562003438 substrate (anthranilate) binding pocket [chemical binding]; other site 512562003439 product (indole) binding pocket [chemical binding]; other site 512562003440 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 512562003441 active site 512562003442 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 512562003443 anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245 512562003444 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 512562003445 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 512562003446 Glutamine amidotransferase class-I; Region: GATase; pfam00117 512562003447 glutamine binding [chemical binding]; other site 512562003448 catalytic triad [active] 512562003449 anthranilate synthase component I, proteobacterial subset; Region: trpE_proteo; TIGR00565 512562003450 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 512562003451 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 512562003452 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 512562003453 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 512562003454 putative active site [active] 512562003455 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 512562003456 active site 512562003457 motif I; other site 512562003458 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 512562003459 motif II; other site 512562003460 Uncharacterized conserved protein [Function unknown]; Region: COG2353 512562003461 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 512562003462 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 512562003463 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 512562003464 Thiamine pyrophosphokinase; Region: TPK; cd07995 512562003465 active site 512562003466 dimerization interface [polypeptide binding]; other site 512562003467 thiamine binding site [chemical binding]; other site 512562003468 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 512562003469 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 512562003470 alphaNTD homodimer interface [polypeptide binding]; other site 512562003471 DNA-directed RNA polymerase, alpha subunit, bacterial and chloroplast-type; Region: rpoA; TIGR02027 512562003472 alphaNTD - beta interaction site [polypeptide binding]; other site 512562003473 alphaNTD - beta' interaction site [polypeptide binding]; other site 512562003474 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 512562003475 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 512562003476 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 512562003477 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 512562003478 RNA binding surface [nucleotide binding]; other site 512562003479 30S ribosomal protein S11; Validated; Region: PRK05309 512562003480 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 512562003481 30S ribosomal protein S13; Region: bact_S13; TIGR03631 512562003482 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 512562003483 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 512562003484 rRNA binding site [nucleotide binding]; other site 512562003485 predicted 30S ribosome binding site; other site 512562003486 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 512562003487 active site 512562003488 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 512562003489 SecY translocase; Region: SecY; pfam00344 512562003490 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 512562003491 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 512562003492 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 512562003493 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 512562003494 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 512562003495 23S rRNA interface [nucleotide binding]; other site 512562003496 5S rRNA interface [nucleotide binding]; other site 512562003497 L27 interface [polypeptide binding]; other site 512562003498 L5 interface [polypeptide binding]; other site 512562003499 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 512562003500 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 512562003501 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 512562003502 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 512562003503 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 512562003504 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 512562003505 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 512562003506 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 512562003507 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 512562003508 RNA binding site [nucleotide binding]; other site 512562003509 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 512562003510 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 512562003511 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 512562003512 putative translocon interaction site; other site 512562003513 23S rRNA interface [nucleotide binding]; other site 512562003514 signal recognition particle (SRP54) interaction site; other site 512562003515 L23 interface [polypeptide binding]; other site 512562003516 trigger factor interaction site; other site 512562003517 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 512562003518 23S rRNA interface [nucleotide binding]; other site 512562003519 5S rRNA interface [nucleotide binding]; other site 512562003520 putative antibiotic binding site [chemical binding]; other site 512562003521 L25 interface [polypeptide binding]; other site 512562003522 L27 interface [polypeptide binding]; other site 512562003523 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 512562003524 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 512562003525 G-X-X-G motif; other site 512562003526 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 512562003527 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 512562003528 putative translocon binding site; other site 512562003529 protein-rRNA interface [nucleotide binding]; other site 512562003530 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 512562003531 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 512562003532 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 512562003533 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 512562003534 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 512562003535 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 512562003536 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 512562003537 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 512562003538 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 512562003539 AAA domain; Region: AAA_14; pfam13173 512562003540 Helix-turn-helix domain; Region: HTH_36; pfam13730 512562003541 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 512562003542 RNA/DNA hybrid binding site [nucleotide binding]; other site 512562003543 active site 512562003544 fumarate hydratase; Reviewed; Region: fumC; PRK00485 512562003545 Class II fumarases; Region: Fumarase_classII; cd01362 512562003546 active site 512562003547 tetramer interface [polypeptide binding]; other site 512562003548 YtkA-like; Region: YtkA; pfam13115 512562003549 Outer membrane efflux protein; Region: OEP; pfam02321 512562003550 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 512562003551 HlyD family secretion protein; Region: HlyD_3; pfam13437 512562003552 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 512562003553 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 512562003554 AzlC protein; Region: AzlC; cl00570 512562003555 chaperone protein DnaJ; Provisional; Region: PRK14288 512562003556 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 512562003557 HSP70 interaction site [polypeptide binding]; other site 512562003558 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 512562003559 substrate binding site [polypeptide binding]; other site 512562003560 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 512562003561 Zn binding sites [ion binding]; other site 512562003562 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 512562003563 substrate binding site [polypeptide binding]; other site 512562003564 dimer interface [polypeptide binding]; other site 512562003565 Uncharacterized conserved protein [Function unknown]; Region: COG1432 512562003566 LabA_like proteins; Region: LabA_like; cd06167 512562003567 putative metal binding site [ion binding]; other site 512562003568 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 512562003569 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 512562003570 Ligand Binding Site [chemical binding]; other site 512562003571 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 512562003572 HSP70 interaction site [polypeptide binding]; other site 512562003573 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 512562003574 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 512562003575 active site 512562003576 (T/H)XGH motif; other site 512562003577 nickel responsive regulator; Provisional; Region: PRK00630 512562003578 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 512562003579 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 512562003580 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 512562003581 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 512562003582 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 512562003583 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 512562003584 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 512562003585 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 512562003586 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 512562003587 Mg2+ transporter Helicobacter pylori CorA-like subgroup; Region: HpCorA-like; cd12836 512562003588 Cl binding site [ion binding]; other site 512562003589 oligomer interface [polypeptide binding]; other site 512562003590 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 512562003591 Phosphoglycerate kinase; Region: PGK; pfam00162 512562003592 substrate binding site [chemical binding]; other site 512562003593 hinge regions; other site 512562003594 ADP binding site [chemical binding]; other site 512562003595 catalytic site [active] 512562003596 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 512562003597 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 512562003598 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 512562003599 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 512562003600 ligand binding site [chemical binding]; other site 512562003601 active site 512562003602 UGI interface [polypeptide binding]; other site 512562003603 catalytic site [active] 512562003604 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 512562003605 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 512562003606 putative acyl-acceptor binding pocket; other site 512562003607 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 512562003608 C-terminal peptidase (prc); Region: prc; TIGR00225 512562003609 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 512562003610 protein binding site [polypeptide binding]; other site 512562003611 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 512562003612 Catalytic dyad [active] 512562003613 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 512562003614 DNA methylase; Region: N6_N4_Mtase; pfam01555 512562003615 Predicted helicase [General function prediction only]; Region: COG4889 512562003616 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 512562003617 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 512562003618 dimerization interface [polypeptide binding]; other site 512562003619 active site 512562003620 quinolinate synthetase complex, A subunit; Region: nadA; TIGR00550 512562003621 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 512562003622 prenyltransferase; Reviewed; Region: ubiA; PRK12874 512562003623 UbiA prenyltransferase family; Region: UbiA; pfam01040 512562003624 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 512562003625 Competence protein; Region: Competence; pfam03772 512562003626 replicative DNA helicase; Provisional; Region: PRK08506 512562003627 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 512562003628 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 512562003629 Walker A motif; other site 512562003630 ATP binding site [chemical binding]; other site 512562003631 Walker B motif; other site 512562003632 DNA binding loops [nucleotide binding] 512562003633 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 512562003634 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 512562003635 putative substrate binding site [chemical binding]; other site 512562003636 putative ATP binding site [chemical binding]; other site 512562003637 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 512562003638 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 512562003639 dimer interface [polypeptide binding]; other site 512562003640 phosphorylation site [posttranslational modification] 512562003641 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 512562003642 ATP binding site [chemical binding]; other site 512562003643 Mg2+ binding site [ion binding]; other site 512562003644 G-X-G motif; other site 512562003645 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 512562003646 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 512562003647 active site 512562003648 phosphorylation site [posttranslational modification] 512562003649 intermolecular recognition site; other site 512562003650 dimerization interface [polypeptide binding]; other site 512562003651 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 512562003652 DNA binding site [nucleotide binding] 512562003653 Restriction endonuclease EcoRV; Region: Endonuc-EcoRV; pfam09233 512562003654 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 512562003655 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 512562003656 DNA methylase; Region: N6_N4_Mtase; pfam01555 512562003657 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 512562003658 DNA methylase; Region: N6_N4_Mtase; pfam01555 512562003659 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 512562003660 DEAD-like helicases superfamily; Region: DEXDc; smart00487 512562003661 ATP binding site [chemical binding]; other site 512562003662 putative Mg++ binding site [ion binding]; other site 512562003663 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 512562003664 rod shape-determining protein MreC; Region: MreC; pfam04085 512562003665 rod shape-determining protein MreB; Provisional; Region: PRK13927 512562003666 MreB and similar proteins; Region: MreB_like; cd10225 512562003667 nucleotide binding site [chemical binding]; other site 512562003668 Mg binding site [ion binding]; other site 512562003669 putative protofilament interaction site [polypeptide binding]; other site 512562003670 RodZ interaction site [polypeptide binding]; other site 512562003671 endopeptidase Clp ATP-binding regulatory subunit (clpX); Region: clpX; TIGR00382 512562003672 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 512562003673 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 512562003674 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 512562003675 Walker A motif; other site 512562003676 ATP binding site [chemical binding]; other site 512562003677 Walker B motif; other site 512562003678 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 512562003679 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 512562003680 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 512562003681 active site 512562003682 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 512562003683 flagellar assembly protein FliW; Provisional; Region: PRK13282 512562003684 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 512562003685 ATP-dependent protease La; Region: lon; TIGR00763 512562003686 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 512562003687 Walker A motif; other site 512562003688 ATP binding site [chemical binding]; other site 512562003689 Walker B motif; other site 512562003690 arginine finger; other site 512562003691 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 512562003692 prephenate dehydrogenase; Validated; Region: PRK08507 512562003693 Prephenate dehydrogenase; Region: PDH; pfam02153 512562003694 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 512562003695 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 512562003696 active site 512562003697 substrate binding site [chemical binding]; other site 512562003698 Mg2+ binding site [ion binding]; other site 512562003699 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 512562003700 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 512562003701 DNA methylase; Region: N6_N4_Mtase; pfam01555 512562003702 biotin synthase; Provisional; Region: PRK08508 512562003703 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 512562003704 FeS/SAM binding site; other site 512562003705 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 512562003706 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 512562003707 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 512562003708 7-cyano-7-deazaguanine reductase; Region: QueF-II; TIGR03139 512562003709 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 512562003710 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 512562003711 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 512562003712 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 512562003713 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 512562003714 Ligand binding site; other site 512562003715 metal-binding site 512562003716 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 512562003717 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 512562003718 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 512562003719 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 512562003720 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 512562003721 Walker A motif/ATP binding site; other site 512562003722 Walker B motif; other site 512562003723 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 512562003724 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 512562003725 ATP binding site [chemical binding]; other site 512562003726 Walker A motif; other site 512562003727 hexamer interface [polypeptide binding]; other site 512562003728 Walker B motif; other site 512562003729 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 512562003730 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 512562003731 active site 512562003732 HIGH motif; other site 512562003733 nucleotide binding site [chemical binding]; other site 512562003734 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 512562003735 active site 512562003736 KMSKS motif; other site 512562003737 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 512562003738 tRNA binding surface [nucleotide binding]; other site 512562003739 anticodon binding site; other site 512562003740 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 512562003741 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 512562003742 RNA binding surface [nucleotide binding]; other site 512562003743 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 512562003744 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 512562003745 FeS/SAM binding site; other site 512562003746 KpsF/GutQ family protein; Region: kpsF; TIGR00393 512562003747 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 512562003748 putative active site [active] 512562003749 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 512562003750 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 512562003751 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 512562003752 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 512562003753 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 512562003754 dimethyladenosine transferase; Region: ksgA; TIGR00755 512562003755 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 512562003756 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 512562003757 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 512562003758 formyltetrahydrofolate deformylase; Region: PurU; TIGR00655 512562003759 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 512562003760 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 512562003761 active site 512562003762 substrate binding site [chemical binding]; other site 512562003763 cosubstrate binding site; other site 512562003764 catalytic site [active] 512562003765 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 512562003766 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 512562003767 tandem repeat interface [polypeptide binding]; other site 512562003768 oligomer interface [polypeptide binding]; other site 512562003769 active site residues [active] 512562003770 TIR domain; Region: TIR_2; pfam13676 512562003771 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 512562003772 active site 512562003773 carbon storage regulator; Provisional; Region: PRK00568 512562003774 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 512562003775 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 512562003776 SmpB-tmRNA interface; other site 512562003777 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 512562003778 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 512562003779 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 512562003780 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 512562003781 ribonuclease P protein component, eubacterial; Region: rnpA; TIGR00188 512562003782 hypothetical protein; Provisional; Region: PRK14374 512562003783 membrane protein insertase; Provisional; Region: PRK01318 512562003784 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 512562003785 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 512562003786 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 512562003787 tRNA modification GTPase TrmE; Region: mnmE_trmE_thdF; TIGR00450 512562003788 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 512562003789 GTP/Mg2+ binding site [chemical binding]; other site 512562003790 G4 box; other site 512562003791 G5 box; other site 512562003792 trmE is a tRNA modification GTPase; Region: trmE; cd04164 512562003793 G1 box; other site 512562003794 G1 box; other site 512562003795 GTP/Mg2+ binding site [chemical binding]; other site 512562003796 Switch I region; other site 512562003797 Switch I region; other site 512562003798 G2 box; other site 512562003799 G2 box; other site 512562003800 Switch II region; other site 512562003801 G3 box; other site 512562003802 G3 box; other site 512562003803 Switch II region; other site 512562003804 G4 box; other site 512562003805 G5 box; other site 512562003806 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 512562003807 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562003808 LPP20 lipoprotein; Region: LPP20; pfam02169 512562003809 LPP20 lipoprotein precursor; Region: LPP20; pfam02169 512562003810 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 512562003811 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 512562003812 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 512562003813 catalytic residues [active] 512562003814 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 512562003815 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 512562003816 RNA binding surface [nucleotide binding]; other site 512562003817 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 512562003818 active site 512562003819 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 512562003820 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 512562003821 active site 512562003822 PHP Thumb interface [polypeptide binding]; other site 512562003823 metal binding site [ion binding]; metal-binding site 512562003824 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 512562003825 generic binding surface I; other site 512562003826 generic binding surface II; other site 512562003827 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 512562003828 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 512562003829 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 512562003830 mce related protein; Region: MCE; pfam02470 512562003831 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 512562003832 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 512562003833 Walker A/P-loop; other site 512562003834 ATP binding site [chemical binding]; other site 512562003835 Q-loop/lid; other site 512562003836 ABC transporter signature motif; other site 512562003837 Walker B; other site 512562003838 D-loop; other site 512562003839 H-loop/switch region; other site 512562003840 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 512562003841 conserved hypothetical integral membrane protein; Region: TIGR00056 512562003842 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562003843 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 512562003844 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 512562003845 homodimer interface [polypeptide binding]; other site 512562003846 substrate-cofactor binding pocket; other site 512562003847 catalytic residue [active] 512562003848 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562003849 DNA polymerase I; Region: pola; TIGR00593 512562003850 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 512562003851 active site 512562003852 metal binding site 1 [ion binding]; metal-binding site 512562003853 putative 5' ssDNA interaction site; other site 512562003854 metal binding site 3; metal-binding site 512562003855 metal binding site 2 [ion binding]; metal-binding site 512562003856 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 512562003857 putative DNA binding site [nucleotide binding]; other site 512562003858 putative metal binding site [ion binding]; other site 512562003859 3'-5' exonuclease; Region: 35EXOc; smart00474 512562003860 active site 512562003861 substrate binding site [chemical binding]; other site 512562003862 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 512562003863 active site 512562003864 DNA binding site [nucleotide binding] 512562003865 catalytic site [active] 512562003866 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 512562003867 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 512562003868 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 512562003869 thymidylate kinase; Validated; Region: tmk; PRK00698 512562003870 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 512562003871 TMP-binding site; other site 512562003872 ATP-binding site [chemical binding]; other site 512562003873 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 512562003874 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 512562003875 active site 512562003876 (T/H)XGH motif; other site 512562003877 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 512562003878 Flavoprotein; Region: Flavoprotein; pfam02441 512562003879 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 512562003880 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 512562003881 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 512562003882 Part of AAA domain; Region: AAA_19; pfam13245 512562003883 Family description; Region: UvrD_C_2; pfam13538 512562003884 TPR repeat; Region: TPR_11; pfam13414 512562003885 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 512562003886 TPR motif; other site 512562003887 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 512562003888 binding surface 512562003889 TPR motif; other site 512562003890 seryl-tRNA synthetase; Provisional; Region: PRK05431 512562003891 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 512562003892 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 512562003893 dimer interface [polypeptide binding]; other site 512562003894 active site 512562003895 motif 1; other site 512562003896 motif 2; other site 512562003897 motif 3; other site 512562003898 Predicted amidohydrolase [General function prediction only]; Region: COG0388 512562003899 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 512562003900 active site 512562003901 catalytic triad [active] 512562003902 dimer interface [polypeptide binding]; other site 512562003903 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14065 512562003904 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 512562003905 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 512562003906 S-adenosylmethionine binding site [chemical binding]; other site 512562003907 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 512562003908 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 512562003909 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 512562003910 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 512562003911 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 512562003912 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 512562003913 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 512562003914 HlyD family secretion protein; Region: HlyD_3; pfam13437 512562003915 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 512562003916 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 512562003917 Domain of unknown function DUF21; Region: DUF21; pfam01595 512562003918 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 512562003919 Transporter associated domain; Region: CorC_HlyC; smart01091 512562003920 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 512562003921 Phosphate transporter family; Region: PHO4; pfam01384 512562003922 Phosphate transporter family; Region: PHO4; cl00396 512562003923 NifU-like domain; Region: NifU; pfam01106 512562003924 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 512562003925 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 512562003926 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 512562003927 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 512562003928 putative active site [active] 512562003929 transaldolase; Provisional; Region: PRK03903 512562003930 catalytic residue [active] 512562003931 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 512562003932 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 512562003933 5S rRNA interface [nucleotide binding]; other site 512562003934 CTC domain interface [polypeptide binding]; other site 512562003935 L16 interface [polypeptide binding]; other site 512562003936 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 512562003937 putative active site [active] 512562003938 catalytic residue [active] 512562003939 Predicted permeases [General function prediction only]; Region: COG0795 512562003940 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 512562003941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 512562003942 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 512562003943 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 512562003944 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 512562003945 metal-binding site [ion binding] 512562003946 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 512562003947 Soluble P-type ATPase [General function prediction only]; Region: COG4087 512562003948 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 512562003949 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 512562003950 S-adenosylmethionine binding site [chemical binding]; other site 512562003951 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 512562003952 catalytic motif [active] 512562003953 Zn binding site [ion binding]; other site 512562003954 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 512562003955 RibD C-terminal domain; Region: RibD_C; cl17279 512562003956 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 512562003957 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 512562003958 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 512562003959 4Fe-4S binding domain; Region: Fer4_5; pfam12801 512562003960 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 512562003961 acyl-phosphate glycerol 3-phosphate acyltransferase; Region: TIGR00023 512562003962 FolB domain; Region: folB_dom; TIGR00526 512562003963 active site 512562003964 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 512562003965 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 512562003966 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 512562003967 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 512562003968 NusA N-terminal domain; Region: NusA_N; pfam08529 512562003969 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 512562003970 RNA binding site [nucleotide binding]; other site 512562003971 homodimer interface [polypeptide binding]; other site 512562003972 NusA-like KH domain; Region: KH_5; pfam13184 512562003973 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 512562003974 G-X-X-G motif; other site 512562003975 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 512562003976 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 512562003977 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 512562003978 putative active site [active] 512562003979 putative NTP binding site [chemical binding]; other site 512562003980 putative nucleic acid binding site [nucleotide binding]; other site 512562003981 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 512562003982 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 512562003983 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 512562003984 Restriction endonuclease [Defense mechanisms]; Region: COG3587 512562003985 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 512562003986 ATP binding site [chemical binding]; other site 512562003987 putative Mg++ binding site [ion binding]; other site 512562003988 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 512562003989 DNA methylase; Region: N6_N4_Mtase; cl17433 512562003990 DNA methylase; Region: N6_N4_Mtase; pfam01555 512562003991 DNA methylase; Region: N6_N4_Mtase; cl17433 512562003992 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 512562003993 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 512562003994 ssDNA binding site; other site 512562003995 generic binding surface II; other site 512562003996 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 512562003997 ATP binding site [chemical binding]; other site 512562003998 putative Mg++ binding site [ion binding]; other site 512562003999 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 512562004000 nucleotide binding region [chemical binding]; other site 512562004001 ATP-binding site [chemical binding]; other site 512562004002 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562004003 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 512562004004 active site 512562004005 putative catalytic site [active] 512562004006 DNA binding site [nucleotide binding] 512562004007 putative phosphate binding site [ion binding]; other site 512562004008 metal binding site A [ion binding]; metal-binding site 512562004009 AP binding site [nucleotide binding]; other site 512562004010 metal binding site B [ion binding]; metal-binding site 512562004011 similar to hypothetical protein 512562004012 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 512562004013 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 512562004014 Walker A motif; other site 512562004015 ATP binding site [chemical binding]; other site 512562004016 Walker B motif; other site 512562004017 arginine finger; other site 512562004018 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 512562004019 DnaA box-binding interface [nucleotide binding]; other site 512562004020 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 512562004021 Protein of unknown function (DUF2443); Region: DUF2443; pfam10398 512562004022 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 512562004023 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 512562004024 glutaminase active site [active] 512562004025 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 512562004026 dimer interface [polypeptide binding]; other site 512562004027 active site 512562004028 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 512562004029 dimer interface [polypeptide binding]; other site 512562004030 active site 512562004031 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 512562004032 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 512562004033 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 512562004034 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 512562004035 HsdM N-terminal domain; Region: HsdM_N; pfam12161 512562004036 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 512562004037 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 512562004038 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 512562004039 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 512562004040 ATP binding site [chemical binding]; other site 512562004041 putative Mg++ binding site [ion binding]; other site 512562004042 Protein of unknown function DUF45; Region: DUF45; pfam01863 512562004043 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 512562004044 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 512562004045 N-terminal plug; other site 512562004046 ligand-binding site [chemical binding]; other site 512562004047 Arginase family; Region: Arginase; cd09989 512562004048 active site 512562004049 Mn binding site [ion binding]; other site 512562004050 oligomer interface [polypeptide binding]; other site 512562004051 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 512562004052 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 512562004053 hexamer interface [polypeptide binding]; other site 512562004054 ligand binding site [chemical binding]; other site 512562004055 putative active site [active] 512562004056 NAD(P) binding site [chemical binding]; other site 512562004057 Protein of unknown function DUF262; Region: DUF262; pfam03235 512562004058 Uncharacterized conserved protein [Function unknown]; Region: COG1479 512562004059 Protein of unknown function DUF262; Region: DUF262; pfam03235 512562004060 Uncharacterized conserved protein [Function unknown]; Region: COG1479 512562004061 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 512562004062 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 512562004063 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 512562004064 ATP-NAD kinase; Region: NAD_kinase; pfam01513 512562004065 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 512562004066 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 512562004067 Walker A/P-loop; other site 512562004068 ATP binding site [chemical binding]; other site 512562004069 Q-loop/lid; other site 512562004070 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 512562004071 ABC transporter signature motif; other site 512562004072 Walker B; other site 512562004073 D-loop; other site 512562004074 H-loop/switch region; other site 512562004075 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 512562004076 Domain of unknown function (DUF814); Region: DUF814; pfam05670 512562004077 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 512562004078 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 512562004079 active site 512562004080 catalytic site [active] 512562004081 substrate binding site [chemical binding]; other site 512562004082 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 512562004083 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 512562004084 substrate binding site [chemical binding]; other site 512562004085 hexamer interface [polypeptide binding]; other site 512562004086 metal binding site [ion binding]; metal-binding site 512562004087 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 512562004088 active site 512562004089 Methyltransferase domain; Region: Methyltransf_26; pfam13659 512562004090 elongation factor Ts; Provisional; Region: tsf; PRK09377 512562004091 UBA/TS-N domain; Region: UBA; pfam00627 512562004092 Elongation factor TS; Region: EF_TS; pfam00889 512562004093 Elongation factor TS; Region: EF_TS; pfam00889 512562004094 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 512562004095 rRNA interaction site [nucleotide binding]; other site 512562004096 S8 interaction site; other site 512562004097 putative laminin-1 binding site; other site 512562004098 putative recombination protein RecB; Provisional; Region: PRK13909 512562004099 Family description; Region: UvrD_C_2; pfam13538 512562004100 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 512562004101 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14856 512562004102 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 512562004103 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 512562004104 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 512562004105 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 512562004106 Protein export membrane protein; Region: SecD_SecF; pfam02355 512562004107 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 512562004108 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 512562004109 HIGH motif; other site 512562004110 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 512562004111 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 512562004112 active site 512562004113 KMSKS motif; other site 512562004114 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 512562004115 tRNA binding surface [nucleotide binding]; other site 512562004116 anticodon binding site; other site 512562004117 Lipopolysaccharide-assembly; Region: LptE; pfam04390 512562004118 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 512562004119 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 512562004120 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 512562004121 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 512562004122 Peptidase family M23; Region: Peptidase_M23; pfam01551 512562004123 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 512562004124 Peptidase family M23; Region: Peptidase_M23; pfam01551 512562004125 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 512562004126 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 512562004127 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 512562004128 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 512562004129 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 512562004130 ATP binding site [chemical binding]; other site 512562004131 putative Mg++ binding site [ion binding]; other site 512562004132 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 512562004133 nucleotide binding region [chemical binding]; other site 512562004134 ATP-binding site [chemical binding]; other site 512562004135 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 512562004136 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 512562004137 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 512562004138 iron-sulfur cluster [ion binding]; other site 512562004139 [2Fe-2S] cluster binding site [ion binding]; other site 512562004140 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 512562004141 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 512562004142 intrachain domain interface; other site 512562004143 interchain domain interface [polypeptide binding]; other site 512562004144 heme bH binding site [chemical binding]; other site 512562004145 Qi binding site; other site 512562004146 heme bL binding site [chemical binding]; other site 512562004147 Qo binding site; other site 512562004148 interchain domain interface [polypeptide binding]; other site 512562004149 intrachain domain interface; other site 512562004150 Qi binding site; other site 512562004151 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 512562004152 Qo binding site; other site 512562004153 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 512562004154 Cytochrome c; Region: Cytochrom_C; pfam00034 512562004155 Cytochrome c; Region: Cytochrom_C; cl11414 512562004156 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 512562004157 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 512562004158 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 512562004159 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 512562004160 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 512562004161 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 512562004162 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 512562004163 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 512562004164 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 512562004165 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 512562004166 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 512562004167 intersubunit interface [polypeptide binding]; other site 512562004168 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 512562004169 Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_d; cd01141 512562004170 putative ligand binding site [chemical binding]; other site 512562004171 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 512562004172 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 512562004173 dimer interface [polypeptide binding]; other site 512562004174 decamer (pentamer of dimers) interface [polypeptide binding]; other site 512562004175 catalytic triad [active] 512562004176 peroxidatic and resolving cysteines [active] 512562004177 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 512562004178 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 512562004179 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 512562004180 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 512562004181 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 512562004182 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 512562004183 G1 box; other site 512562004184 GTP/Mg2+ binding site [chemical binding]; other site 512562004185 Switch I region; other site 512562004186 G2 box; other site 512562004187 G3 box; other site 512562004188 Switch II region; other site 512562004189 G4 box; other site 512562004190 G5 box; other site 512562004191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 512562004192 OstA-like protein; Region: OstA; pfam03968 512562004193 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 512562004194 motif II; other site 512562004195 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 512562004196 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 512562004197 Sporulation related domain; Region: SPOR; pfam05036 512562004198 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 512562004199 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 512562004200 N-acetyl-D-glucosamine binding site [chemical binding]; other site 512562004201 catalytic residue [active] 512562004202 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 512562004203 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 512562004204 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 512562004205 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 512562004206 active site 512562004207 riboflavin synthase, alpha subunit; Region: ribE; TIGR00187 512562004208 Lumazine binding domain; Region: Lum_binding; pfam00677 512562004209 Lumazine binding domain; Region: Lum_binding; pfam00677 512562004210 flhB C-terminus-related protein; Region: flhB_rel; TIGR00789 512562004211 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 512562004212 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 512562004213 Walker A/P-loop; other site 512562004214 ATP binding site [chemical binding]; other site 512562004215 Q-loop/lid; other site 512562004216 ABC transporter signature motif; other site 512562004217 Walker B; other site 512562004218 D-loop; other site 512562004219 H-loop/switch region; other site 512562004220 NIL domain; Region: NIL; pfam09383 512562004221 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 512562004222 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 512562004223 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 512562004224 active site 512562004225 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 512562004226 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 512562004227 Mg++ binding site [ion binding]; other site 512562004228 putative catalytic motif [active] 512562004229 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 512562004230 active site 512562004231 hydrophilic channel; other site 512562004232 dimerization interface [polypeptide binding]; other site 512562004233 catalytic residues [active] 512562004234 active site lid [active] 512562004235 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 512562004236 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 512562004237 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 512562004238 metallohydrolase, glycoprotease/Kae1 family; Region: gcp_kae1; TIGR00329 512562004239 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 512562004240 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 512562004241 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 512562004242 hypothetical protein; Provisional; Region: PRK10236 512562004243 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 512562004244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735