-- dump date 20140619_112911 -- class Genbank::misc_feature -- table misc_feature_note -- id note 592205000001 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 592205000002 putative RNA binding site [nucleotide binding]; other site 592205000003 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 592205000004 homopentamer interface [polypeptide binding]; other site 592205000005 active site 592205000006 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 592205000007 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 592205000008 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA; cl00391 592205000009 active site clefts [active] 592205000010 zinc binding site [ion binding]; other site 592205000011 dimer interface [polypeptide binding]; other site 592205000012 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 592205000013 active site 592205000014 dimer interface [polypeptide binding]; other site 592205000015 pantoate--beta-alanine ligase; Region: panC; TIGR00018 592205000016 Pantoate-beta-alanine ligase; Region: PanC; cd00560 592205000017 active site 592205000018 ATP-binding site [chemical binding]; other site 592205000019 pantoate-binding site; other site 592205000020 HXXH motif; other site 592205000021 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205000022 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 592205000023 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 592205000024 ring oligomerisation interface [polypeptide binding]; other site 592205000025 ATP/Mg binding site [chemical binding]; other site 592205000026 stacking interactions; other site 592205000027 hinge regions; other site 592205000028 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 592205000029 oligomerisation interface [polypeptide binding]; other site 592205000030 mobile loop; other site 592205000031 roof hairpin; other site 592205000032 DNA primase, catalytic core; Region: dnaG; TIGR01391 592205000033 CHC2 zinc finger; Region: zf-CHC2; pfam01807 592205000034 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 592205000035 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 592205000036 active site 592205000037 metal binding site [ion binding]; metal-binding site 592205000038 interdomain interaction site; other site 592205000039 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 592205000040 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 592205000041 Ligand Binding Site [chemical binding]; other site 592205000042 TrbC/VIRB2 family; Region: TrbC; cl01583 592205000043 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 592205000044 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 592205000045 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 592205000046 Walker A motif; other site 592205000047 ATP binding site [chemical binding]; other site 592205000048 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 592205000049 Walker B motif; other site 592205000050 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 592205000051 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 592205000052 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 592205000053 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 592205000054 active site 592205000055 phosphorylation site [posttranslational modification] 592205000056 intermolecular recognition site; other site 592205000057 dimerization interface [polypeptide binding]; other site 592205000058 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 592205000059 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 592205000060 dimer interface [polypeptide binding]; other site 592205000061 active site 592205000062 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 592205000063 catalytic residues [active] 592205000064 substrate binding site [chemical binding]; other site 592205000065 lipid A 1-phosphatase; Reviewed; Region: PRK09597 592205000066 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 592205000067 active site 592205000068 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 592205000069 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 592205000070 Sulfatase; Region: Sulfatase; pfam00884 592205000071 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205000072 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 592205000073 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 592205000074 dimer interface [polypeptide binding]; other site 592205000075 active site 592205000076 citrylCoA binding site [chemical binding]; other site 592205000077 NADH binding [chemical binding]; other site 592205000078 cationic pore residues; other site 592205000079 oxalacetate/citrate binding site [chemical binding]; other site 592205000080 coenzyme A binding site [chemical binding]; other site 592205000081 catalytic triad [active] 592205000082 isocitrate dehydrogenase; Validated; Region: PRK07362 592205000083 isocitrate dehydrogenase; Reviewed; Region: PRK07006 592205000084 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 592205000085 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 592205000086 AAA domain; Region: AAA_26; pfam13500 592205000087 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 592205000088 Ligand Binding Site [chemical binding]; other site 592205000089 Uncharacterized conserved protein [Function unknown]; Region: COG2127 592205000090 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 592205000091 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 592205000092 Walker A motif; other site 592205000093 ATP binding site [chemical binding]; other site 592205000094 Walker B motif; other site 592205000095 arginine finger; other site 592205000096 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 592205000097 Walker A motif; other site 592205000098 ATP binding site [chemical binding]; other site 592205000099 Walker B motif; other site 592205000100 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 592205000101 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 592205000102 tetramerization interface [polypeptide binding]; other site 592205000103 active site 592205000104 hypothetical protein; Provisional; Region: PRK03762 592205000105 PDZ domain; Region: PDZ_2; pfam13180 592205000106 protein binding site [polypeptide binding]; other site 592205000107 Type IV secretory pathway, TrbL components [Intracellular trafficking and secretion]; Region: TrbL; COG3846 592205000108 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 592205000109 Type IV secretory pathway, VirB9 components [Intracellular trafficking and secretion]; Region: VirB9; COG3504 592205000110 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 592205000111 VirB7 interaction site; other site 592205000112 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 592205000113 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 592205000114 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 592205000115 Substrate binding site; other site 592205000116 Cupin domain; Region: Cupin_2; cl17218 592205000117 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 592205000118 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 592205000119 NADP-binding site; other site 592205000120 homotetramer interface [polypeptide binding]; other site 592205000121 substrate binding site [chemical binding]; other site 592205000122 homodimer interface [polypeptide binding]; other site 592205000123 active site 592205000124 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 592205000125 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 592205000126 NADP binding site [chemical binding]; other site 592205000127 active site 592205000128 putative substrate binding site [chemical binding]; other site 592205000129 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 592205000130 dimerization interface [polypeptide binding]; other site 592205000131 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 592205000132 ATP binding site [chemical binding]; other site 592205000133 Acylphosphatase; Region: Acylphosphatase; pfam00708 592205000134 [NiFe] hydrogenase maturation protein HypF; Region: hypF; TIGR00143 592205000135 HypF finger; Region: zf-HYPF; pfam07503 592205000136 HypF finger; Region: zf-HYPF; pfam07503 592205000137 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 592205000138 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957 592205000139 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 592205000140 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 592205000141 DNA methylase; Region: N6_N4_Mtase; pfam01555 592205000142 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 592205000143 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 592205000144 Na binding site [ion binding]; other site 592205000145 Proline dehydrogenase; Region: Pro_dh; pfam01619 592205000146 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 592205000147 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 592205000148 Glutamate binding site [chemical binding]; other site 592205000149 NAD binding site [chemical binding]; other site 592205000150 catalytic residues [active] 592205000151 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 592205000152 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 592205000153 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 592205000154 A nuclease of the HNH/ENDO VII superfamily with conserved WHH; Region: WHH; pfam14414 592205000155 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 592205000156 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 592205000157 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 592205000158 G1 box; other site 592205000159 GTP/Mg2+ binding site [chemical binding]; other site 592205000160 G2 box; other site 592205000161 Switch I region; other site 592205000162 G3 box; other site 592205000163 Switch II region; other site 592205000164 G4 box; other site 592205000165 G5 box; other site 592205000166 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 592205000167 UreF; Region: UreF; pfam01730 592205000168 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 592205000169 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 592205000170 dimer interface [polypeptide binding]; other site 592205000171 catalytic residues [active] 592205000172 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 592205000173 urease subunit beta; Provisional; Region: ureB; PRK13985 592205000174 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 592205000175 subunit interactions [polypeptide binding]; other site 592205000176 active site 592205000177 flap region; other site 592205000178 urease subunit alpha; Provisional; Region: PRK13986 592205000179 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 592205000180 alpha-gamma subunit interface [polypeptide binding]; other site 592205000181 beta-gamma subunit interface [polypeptide binding]; other site 592205000182 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 592205000183 gamma-beta subunit interface [polypeptide binding]; other site 592205000184 alpha-beta subunit interface [polypeptide binding]; other site 592205000185 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 592205000186 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 592205000187 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 592205000188 active site 592205000189 substrate binding site [chemical binding]; other site 592205000190 metal binding site [ion binding]; metal-binding site 592205000191 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 592205000192 peptide chain release factor 1; Validated; Region: prfA; PRK00591 592205000193 This domain is found in peptide chain release factors; Region: PCRF; smart00937 592205000194 RF-1 domain; Region: RF-1; pfam00472 592205000195 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 592205000196 dimer interface [polypeptide binding]; other site 592205000197 putative CheW interface [polypeptide binding]; other site 592205000198 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 592205000199 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 592205000200 23S rRNA interface [nucleotide binding]; other site 592205000201 L3 interface [polypeptide binding]; other site 592205000202 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 592205000203 Predicted dehydrogenase [General function prediction only]; Region: COG0579 592205000204 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 592205000205 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 592205000206 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 592205000207 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 592205000208 NlpC/P60 family; Region: NLPC_P60; pfam00877 592205000209 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 592205000210 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 592205000211 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 592205000212 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 592205000213 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 592205000214 DNA binding residues [nucleotide binding] 592205000215 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 592205000216 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 592205000217 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 592205000218 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 592205000219 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 592205000220 Methyltransferase domain; Region: Methyltransf_26; pfam13659 592205000221 DNA methylase; Region: N6_N4_Mtase; pfam01555 592205000222 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 592205000223 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 592205000224 GDP-Fucose binding site [chemical binding]; other site 592205000225 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 592205000226 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 592205000227 putative ligand binding site [chemical binding]; other site 592205000228 putative NAD binding site [chemical binding]; other site 592205000229 catalytic site [active] 592205000230 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 592205000231 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 592205000232 pyridoxal 5'-phosphate binding site [chemical binding]; other site 592205000233 catalytic residue [active] 592205000234 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 592205000235 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 592205000236 dimer interface [polypeptide binding]; other site 592205000237 putative CheW interface [polypeptide binding]; other site 592205000238 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 592205000239 Ligand Binding Site [chemical binding]; other site 592205000240 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205000241 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 592205000242 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 592205000243 metal-binding site 592205000244 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 592205000245 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 592205000246 dimerization interface [polypeptide binding]; other site 592205000247 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 592205000248 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 592205000249 dimer interface [polypeptide binding]; other site 592205000250 putative CheW interface [polypeptide binding]; other site 592205000251 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 592205000252 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 592205000253 active site 592205000254 metal binding site [ion binding]; metal-binding site 592205000255 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 592205000256 S-ribosylhomocysteinase; Provisional; Region: PRK02260 592205000257 cystathionine gamma-synthase/cystathionine beta-lyase; Validated; Region: PRK06176 592205000258 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 592205000259 homodimer interface [polypeptide binding]; other site 592205000260 substrate-cofactor binding pocket; other site 592205000261 pyridoxal 5'-phosphate binding site [chemical binding]; other site 592205000262 catalytic residue [active] 592205000263 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 592205000264 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 592205000265 dimer interface [polypeptide binding]; other site 592205000266 pyridoxal 5'-phosphate binding site [chemical binding]; other site 592205000267 catalytic residue [active] 592205000268 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 592205000269 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 592205000270 nucleotide binding site [chemical binding]; other site 592205000271 NEF interaction site [polypeptide binding]; other site 592205000272 SBD interface [polypeptide binding]; other site 592205000273 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 592205000274 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 592205000275 dimer interface [polypeptide binding]; other site 592205000276 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 592205000277 heat-inducible transcription repressor; Provisional; Region: PRK03911 592205000278 hypothetical protein; Provisional; Region: PRK05834 592205000279 intersubunit interface [polypeptide binding]; other site 592205000280 active site 592205000281 Zn2+ binding site [ion binding]; other site 592205000282 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 592205000283 flagellin B; Provisional; Region: PRK13588 592205000284 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 592205000285 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 592205000286 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 592205000287 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 592205000288 DNA topoisomerase I; Validated; Region: PRK05582 592205000289 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 592205000290 active site 592205000291 interdomain interaction site; other site 592205000292 putative metal-binding site [ion binding]; other site 592205000293 nucleotide binding site [chemical binding]; other site 592205000294 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 592205000295 domain I; other site 592205000296 DNA binding groove [nucleotide binding] 592205000297 phosphate binding site [ion binding]; other site 592205000298 domain II; other site 592205000299 domain III; other site 592205000300 nucleotide binding site [chemical binding]; other site 592205000301 catalytic site [active] 592205000302 domain IV; other site 592205000303 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 592205000304 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 592205000305 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 592205000306 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 592205000307 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 592205000308 FeS/SAM binding site; other site 592205000309 phosphoenolpyruvate synthase; Validated; Region: PRK06464 592205000310 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 592205000311 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 592205000312 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 592205000313 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 592205000314 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 592205000315 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 592205000316 active site 592205000317 dimer interface [polypeptide binding]; other site 592205000318 motif 1; other site 592205000319 motif 2; other site 592205000320 motif 3; other site 592205000321 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 592205000322 anticodon binding site; other site 592205000323 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 592205000324 translation initiation factor IF-3; Region: infC; TIGR00168 592205000325 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 592205000326 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 592205000327 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 592205000328 23S rRNA binding site [nucleotide binding]; other site 592205000329 L21 binding site [polypeptide binding]; other site 592205000330 L13 binding site [polypeptide binding]; other site 592205000331 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205000332 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 592205000333 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 592205000334 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 592205000335 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 592205000336 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 592205000337 serine transporter; Region: stp; TIGR00814 592205000338 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase [Amino acid transport and metabolism]; Region: AroG; COG3200 592205000339 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 592205000340 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 592205000341 catalytic triad [active] 592205000342 Uncharacterized conserved protein [Function unknown]; Region: COG1556 592205000343 iron-sulfur cluster-binding protein; Region: TIGR00273 592205000344 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 592205000345 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 592205000346 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 592205000347 Cysteine-rich domain; Region: CCG; pfam02754 592205000348 Cysteine-rich domain; Region: CCG; pfam02754 592205000349 L-lactate transport; Region: lctP; TIGR00795 592205000350 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 592205000351 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 592205000352 L-lactate transport; Region: lctP; TIGR00795 592205000353 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 592205000354 DNA glycosylase MutY; Provisional; Region: PRK13910 592205000355 minor groove reading motif; other site 592205000356 helix-hairpin-helix signature motif; other site 592205000357 substrate binding pocket [chemical binding]; other site 592205000358 active site 592205000359 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 592205000360 DNA binding and oxoG recognition site [nucleotide binding] 592205000361 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 592205000362 Sodium:sulfate symporter transmembrane region; Region: Na_sulph_symp; pfam00939 592205000363 transmembrane helices; other site 592205000364 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 592205000365 Low-spin heme binding site [chemical binding]; other site 592205000366 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 592205000367 D-pathway; other site 592205000368 Putative water exit pathway; other site 592205000369 Binuclear center (active site) [active] 592205000370 K-pathway; other site 592205000371 Putative proton exit pathway; other site 592205000372 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 592205000373 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 592205000374 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 592205000375 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 592205000376 Cytochrome c; Region: Cytochrom_C; pfam00034 592205000377 Cytochrome c; Region: Cytochrom_C; pfam00034 592205000378 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 592205000379 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 592205000380 recombinase A; Provisional; Region: recA; PRK09354 592205000381 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 592205000382 hexamer interface [polypeptide binding]; other site 592205000383 Walker A motif; other site 592205000384 ATP binding site [chemical binding]; other site 592205000385 Walker B motif; other site 592205000386 enolase; Provisional; Region: eno; PRK00077 592205000387 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 592205000388 dimer interface [polypeptide binding]; other site 592205000389 metal binding site [ion binding]; metal-binding site 592205000390 substrate binding pocket [chemical binding]; other site 592205000391 AMIN domain; Region: AMIN; pfam11741 592205000392 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 592205000393 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 592205000394 ADP binding site [chemical binding]; other site 592205000395 magnesium binding site [ion binding]; other site 592205000396 putative shikimate binding site; other site 592205000397 Cache domain; Region: Cache_1; pfam02743 592205000398 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 592205000399 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 592205000400 Ligand binding site; other site 592205000401 metal-binding site 592205000402 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 592205000403 Sel1-like repeats; Region: SEL1; smart00671 592205000404 Sel1-like repeats; Region: SEL1; smart00671 592205000405 Sel1-like repeats; Region: SEL1; smart00671 592205000406 Sel1-like repeats; Region: SEL1; smart00671 592205000407 Sel1-like repeats; Region: SEL1; smart00671 592205000408 hypothetical protein; Provisional; Region: PRK12378 592205000409 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 592205000410 dimer interface [polypeptide binding]; other site 592205000411 active site 592205000412 Schiff base residues; other site 592205000413 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 592205000414 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 592205000415 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 592205000416 dimer interface [polypeptide binding]; other site 592205000417 phosphorylation site [posttranslational modification] 592205000418 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 592205000419 ATP binding site [chemical binding]; other site 592205000420 Mg2+ binding site [ion binding]; other site 592205000421 G-X-G motif; other site 592205000422 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 592205000423 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 592205000424 active site 592205000425 phosphorylation site [posttranslational modification] 592205000426 intermolecular recognition site; other site 592205000427 dimerization interface [polypeptide binding]; other site 592205000428 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 592205000429 DNA binding site [nucleotide binding] 592205000430 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 592205000431 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 592205000432 Peptidase family U32; Region: Peptidase_U32; pfam01136 592205000433 peptide chain release factor 2; Region: prfB; TIGR00020 592205000434 This domain is found in peptide chain release factors; Region: PCRF; smart00937 592205000435 RF-1 domain; Region: RF-1; pfam00472 592205000436 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 592205000437 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 592205000438 dimer interface [polypeptide binding]; other site 592205000439 putative functional site; other site 592205000440 putative MPT binding site; other site 592205000441 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 592205000442 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 592205000443 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 592205000444 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 592205000445 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 592205000446 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 592205000447 intersubunit interface [polypeptide binding]; other site 592205000448 active site 592205000449 zinc binding site [ion binding]; other site 592205000450 Na+ binding site [ion binding]; other site 592205000451 elongation factor P; Validated; Region: PRK00529 592205000452 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 592205000453 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 592205000454 RNA binding site [nucleotide binding]; other site 592205000455 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 592205000456 RNA binding site [nucleotide binding]; other site 592205000457 pseudaminic acid synthase; Region: PseI; TIGR03586 592205000458 NeuB family; Region: NeuB; pfam03102 592205000459 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 592205000460 NeuB binding interface [polypeptide binding]; other site 592205000461 putative substrate binding site [chemical binding]; other site 592205000462 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 592205000463 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 592205000464 Walker A/P-loop; other site 592205000465 ATP binding site [chemical binding]; other site 592205000466 Q-loop/lid; other site 592205000467 ABC transporter signature motif; other site 592205000468 Walker B; other site 592205000469 D-loop; other site 592205000470 H-loop/switch region; other site 592205000471 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 592205000472 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 592205000473 active site 592205000474 catalytic triad [active] 592205000475 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 592205000476 Colicin V production protein; Region: Colicin_V; pfam02674 592205000477 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 592205000478 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 592205000479 dimer interface [polypeptide binding]; other site 592205000480 putative anticodon binding site; other site 592205000481 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 592205000482 motif 1; other site 592205000483 active site 592205000484 motif 2; other site 592205000485 motif 3; other site 592205000486 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 592205000487 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 592205000488 dimer interface [polypeptide binding]; other site 592205000489 active site 592205000490 glycine-pyridoxal phosphate binding site [chemical binding]; other site 592205000491 folate binding site [chemical binding]; other site 592205000492 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cd00525 592205000493 nucleotide binding site [chemical binding]; other site 592205000494 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 592205000495 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 592205000496 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 592205000497 PLD-like domain; Region: PLDc_2; pfam13091 592205000498 putative active site [active] 592205000499 catalytic site [active] 592205000500 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 592205000501 PLD-like domain; Region: PLDc_2; pfam13091 592205000502 putative active site [active] 592205000503 catalytic site [active] 592205000504 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 592205000505 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 592205000506 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 592205000507 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 592205000508 L-aspartate oxidase; Provisional; Region: PRK06175 592205000509 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 592205000510 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13553 592205000511 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 592205000512 Iron-sulfur protein interface; other site 592205000513 proximal heme binding site [chemical binding]; other site 592205000514 distal heme binding site [chemical binding]; other site 592205000515 dimer interface [polypeptide binding]; other site 592205000516 triosephosphate isomerase; Provisional; Region: PRK14567 592205000517 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 592205000518 substrate binding site [chemical binding]; other site 592205000519 dimer interface [polypeptide binding]; other site 592205000520 catalytic triad [active] 592205000521 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 592205000522 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 592205000523 NAD binding site [chemical binding]; other site 592205000524 homotetramer interface [polypeptide binding]; other site 592205000525 homodimer interface [polypeptide binding]; other site 592205000526 substrate binding site [chemical binding]; other site 592205000527 active site 592205000528 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Region: lipid_A_lpxD; TIGR01853 592205000529 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 592205000530 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 592205000531 trimer interface [polypeptide binding]; other site 592205000532 active site 592205000533 UDP-GlcNAc binding site [chemical binding]; other site 592205000534 lipid binding site [chemical binding]; lipid-binding site 592205000535 S-adenosylmethionine synthetase; Validated; Region: PRK05250 592205000536 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 592205000537 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 592205000538 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 592205000539 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 592205000540 active site 592205000541 multimer interface [polypeptide binding]; other site 592205000542 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 592205000543 fatty acid/phospholipid synthesis protein PlsX; Region: plsX; TIGR00182 592205000544 3-oxoacyl-(acyl-carrier-protein) synthase III; Region: fabH; TIGR00747 592205000545 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 592205000546 dimer interface [polypeptide binding]; other site 592205000547 active site 592205000548 CoA binding pocket [chemical binding]; other site 592205000549 antiporter inner membrane protein; Provisional; Region: PRK11670 592205000550 Domain of unknown function DUF59; Region: DUF59; cl00941 592205000551 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 592205000552 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 592205000553 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 592205000554 Ligand binding site; other site 592205000555 metal-binding site 592205000556 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 592205000557 heat shock protein 90; Provisional; Region: PRK05218 592205000558 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 592205000559 ATP binding site [chemical binding]; other site 592205000560 Mg2+ binding site [ion binding]; other site 592205000561 G-X-G motif; other site 592205000562 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 592205000563 Sel1-like repeats; Region: SEL1; smart00671 592205000564 Sel1-like repeats; Region: SEL1; smart00671 592205000565 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 592205000566 TPR motif; other site 592205000567 binding surface 592205000568 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 592205000569 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 592205000570 metal binding site [ion binding]; metal-binding site 592205000571 dimer interface [polypeptide binding]; other site 592205000572 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 592205000573 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 592205000574 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 592205000575 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 592205000576 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 592205000577 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 592205000578 transmembrane helices; other site 592205000579 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 592205000580 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 592205000581 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: Dxr; TIGR00243 592205000582 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 592205000583 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 592205000584 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 592205000585 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 592205000586 substrate binding site [chemical binding]; other site 592205000587 Helix-turn-helix domain; Region: HTH_28; pfam13518 592205000588 cysteine desulfurase, NifS family, epsilon proteobacteria type; Region: nifS_epsilon; TIGR03403 592205000589 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 592205000590 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 592205000591 catalytic residue [active] 592205000592 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 592205000593 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 592205000594 trimerization site [polypeptide binding]; other site 592205000595 active site 592205000596 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 592205000597 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 592205000598 DNA repair protein RadA; Region: sms; TIGR00416 592205000599 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 592205000600 Walker A motif/ATP binding site; other site 592205000601 ATP binding site [chemical binding]; other site 592205000602 Walker B motif; other site 592205000603 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 592205000604 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 592205000605 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 592205000606 SelR domain; Region: SelR; pfam01641 592205000607 Predicted permeases [General function prediction only]; Region: COG0730 592205000608 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205000609 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 592205000610 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 592205000611 Sulfate transporter family; Region: Sulfate_transp; pfam00916 592205000612 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205000613 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 592205000614 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 592205000615 Ligand binding site; other site 592205000616 oligomer interface; other site 592205000617 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 592205000618 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 592205000619 hypothetical protein; Provisional; Region: PRK04081 592205000620 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 592205000621 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 592205000622 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 592205000623 Sel1-like repeats; Region: SEL1; smart00671 592205000624 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 592205000625 binding surface 592205000626 TPR motif; other site 592205000627 Sel1-like repeats; Region: SEL1; smart00671 592205000628 Sel1-like repeats; Region: SEL1; smart00671 592205000629 Cytochrome c; Region: Cytochrom_C; cl11414 592205000630 Porphobilinogen deaminase [Coenzyme metabolism]; Region: HemC; COG0181 592205000631 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 592205000632 domain interfaces; other site 592205000633 active site 592205000634 prolyl-tRNA synthetase, family II; Region: proS_fam_II; TIGR00409 592205000635 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 592205000636 dimer interface [polypeptide binding]; other site 592205000637 motif 1; other site 592205000638 active site 592205000639 motif 2; other site 592205000640 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 592205000641 putative deacylase active site [active] 592205000642 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 592205000643 active site 592205000644 motif 3; other site 592205000645 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 592205000646 anticodon binding site; other site 592205000647 glutamyl-tRNA reductase; Region: hemA; TIGR01035 592205000648 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 592205000649 tRNA; other site 592205000650 putative tRNA binding site [nucleotide binding]; other site 592205000651 putative NADP binding site [chemical binding]; other site 592205000652 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 592205000653 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 592205000654 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 592205000655 substrate binding pocket [chemical binding]; other site 592205000656 chain length determination region; other site 592205000657 substrate-Mg2+ binding site; other site 592205000658 catalytic residues [active] 592205000659 aspartate-rich region 1; other site 592205000660 active site lid residues [active] 592205000661 aspartate-rich region 2; other site 592205000662 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 592205000663 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 592205000664 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 592205000665 dimerization interface [polypeptide binding]; other site 592205000666 DPS ferroxidase diiron center [ion binding]; other site 592205000667 ion pore; other site 592205000668 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 592205000669 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 592205000670 dimer interface [polypeptide binding]; other site 592205000671 phosphorylation site [posttranslational modification] 592205000672 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 592205000673 ATP binding site [chemical binding]; other site 592205000674 Mg2+ binding site [ion binding]; other site 592205000675 G-X-G motif; other site 592205000676 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 592205000677 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 592205000678 helicase 45; Provisional; Region: PTZ00424 592205000679 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 592205000680 ATP binding site [chemical binding]; other site 592205000681 Mg++ binding site [ion binding]; other site 592205000682 motif III; other site 592205000683 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 592205000684 nucleotide binding region [chemical binding]; other site 592205000685 ATP-binding site [chemical binding]; other site 592205000686 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 592205000687 SPFH domain / Band 7 family; Region: Band_7; pfam01145 592205000688 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 592205000689 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 592205000690 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 592205000691 Walker A/P-loop; other site 592205000692 ATP binding site [chemical binding]; other site 592205000693 Q-loop/lid; other site 592205000694 ABC transporter signature motif; other site 592205000695 Walker B; other site 592205000696 D-loop; other site 592205000697 H-loop/switch region; other site 592205000698 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 592205000699 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 592205000700 Walker A/P-loop; other site 592205000701 ATP binding site [chemical binding]; other site 592205000702 Q-loop/lid; other site 592205000703 ABC transporter signature motif; other site 592205000704 Walker B; other site 592205000705 D-loop; other site 592205000706 H-loop/switch region; other site 592205000707 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 592205000708 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205000709 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205000710 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 592205000711 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 592205000712 GDP-binding site [chemical binding]; other site 592205000713 ACT binding site; other site 592205000714 IMP binding site; other site 592205000715 Uncharacterized conserved protein [Function unknown]; Region: COG3334 592205000716 RIP metalloprotease RseP; Region: TIGR00054 592205000717 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 592205000718 active site 592205000719 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 592205000720 exodeoxyribonuclease VII, large subunit; Region: xseA; TIGR00237 592205000721 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 592205000722 generic binding surface II; other site 592205000723 generic binding surface I; other site 592205000724 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 592205000725 DNA methylase; Region: N6_N4_Mtase; pfam01555 592205000726 DNA methylase; Region: N6_N4_Mtase; pfam01555 592205000727 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 592205000728 DNA methylase; Region: N6_N4_Mtase; pfam01555 592205000729 Clp amino terminal domain; Region: Clp_N; pfam02861 592205000730 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 592205000731 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 592205000732 Walker A motif; other site 592205000733 ATP binding site [chemical binding]; other site 592205000734 Walker B motif; other site 592205000735 arginine finger; other site 592205000736 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 592205000737 Walker A motif; other site 592205000738 ATP binding site [chemical binding]; other site 592205000739 Walker B motif; other site 592205000740 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 592205000741 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 592205000742 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 592205000743 Dihydroorotase and related cyclic amidohydrolases [Nucleotide transport and metabolism]; Region: PyrC; COG0044 592205000744 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 592205000745 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 592205000746 active site 592205000747 chlorohydrolase; Provisional; Region: PRK08418 592205000748 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 592205000749 active site 592205000750 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 592205000751 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 592205000752 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 592205000753 FeS/SAM binding site; other site 592205000754 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 592205000755 putative acyl-acceptor binding pocket; other site 592205000756 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 592205000757 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 592205000758 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 592205000759 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 592205000760 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 592205000761 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 592205000762 putative active site [active] 592205000763 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 592205000764 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 592205000765 putative acyl-acceptor binding pocket; other site 592205000766 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 592205000767 tRNA-guanine family transglycosylase; Region: tgt_general; TIGR00449 592205000768 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 592205000769 TrkA-C domain; Region: TrkA_C; pfam02080 592205000770 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 592205000771 active site 592205000772 dimer interface [polypeptide binding]; other site 592205000773 metal binding site [ion binding]; metal-binding site 592205000774 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 592205000775 Mechanosensitive ion channel; Region: MS_channel; pfam00924 592205000776 radical SAM methylthiotransferase, MiaB/RimO family; Region: TIGR00089 592205000777 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 592205000778 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 592205000779 FeS/SAM binding site; other site 592205000780 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 592205000781 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 592205000782 Walker A motif; other site 592205000783 ATP binding site [chemical binding]; other site 592205000784 Walker B motif; other site 592205000785 arginine finger; other site 592205000786 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 592205000787 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 592205000788 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 592205000789 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 592205000790 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 592205000791 Autotransporter beta-domain; Region: Autotransporter; pfam03797 592205000792 diaminopimelate decarboxylase; Region: lysA; TIGR01048 592205000793 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 592205000794 active site 592205000795 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 592205000796 substrate binding site [chemical binding]; other site 592205000797 catalytic residues [active] 592205000798 dimer interface [polypeptide binding]; other site 592205000799 Chorismate mutase [Amino acid transport and metabolism]; Region: PheA; COG1605 592205000800 Uncharacterized conserved protein [Function unknown]; Region: COG4866 592205000801 aminodeoxychorismate synthase; Provisional; Region: PRK07508 592205000802 chorismate binding enzyme; Region: Chorismate_bind; cl10555 592205000803 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 592205000804 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 592205000805 substrate-cofactor binding pocket; other site 592205000806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 592205000807 catalytic residue [active] 592205000808 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 592205000809 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 592205000810 multimer interface [polypeptide binding]; other site 592205000811 active site 592205000812 catalytic triad [active] 592205000813 dimer interface [polypeptide binding]; other site 592205000814 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK08412 592205000815 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 592205000816 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 592205000817 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 592205000818 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 592205000819 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 592205000820 peptide binding site [polypeptide binding]; other site 592205000821 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 592205000822 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 592205000823 dimer interface [polypeptide binding]; other site 592205000824 conserved gate region; other site 592205000825 putative PBP binding loops; other site 592205000826 ABC-ATPase subunit interface; other site 592205000827 dipeptide transporter; Provisional; Region: PRK10913 592205000828 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 592205000829 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 592205000830 dimer interface [polypeptide binding]; other site 592205000831 conserved gate region; other site 592205000832 putative PBP binding loops; other site 592205000833 ABC-ATPase subunit interface; other site 592205000834 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 592205000835 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 592205000836 Walker A/P-loop; other site 592205000837 ATP binding site [chemical binding]; other site 592205000838 Q-loop/lid; other site 592205000839 ABC transporter signature motif; other site 592205000840 Walker B; other site 592205000841 D-loop; other site 592205000842 H-loop/switch region; other site 592205000843 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 592205000844 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 592205000845 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 592205000846 Walker A/P-loop; other site 592205000847 ATP binding site [chemical binding]; other site 592205000848 Q-loop/lid; other site 592205000849 ABC transporter signature motif; other site 592205000850 Walker B; other site 592205000851 D-loop; other site 592205000852 H-loop/switch region; other site 592205000853 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 592205000854 GTPase CgtA; Reviewed; Region: obgE; PRK12299 592205000855 GTP1/OBG; Region: GTP1_OBG; pfam01018 592205000856 Obg GTPase; Region: Obg; cd01898 592205000857 G1 box; other site 592205000858 GTP/Mg2+ binding site [chemical binding]; other site 592205000859 Switch I region; other site 592205000860 G2 box; other site 592205000861 G3 box; other site 592205000862 Switch II region; other site 592205000863 G4 box; other site 592205000864 G5 box; other site 592205000865 Alginate lyase; Region: Alginate_lyase; pfam05426 592205000866 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 592205000867 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 592205000868 inhibitor-cofactor binding pocket; inhibition site 592205000869 pyridoxal 5'-phosphate binding site [chemical binding]; other site 592205000870 catalytic residue [active] 592205000871 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 592205000872 Predicted amidohydrolase [General function prediction only]; Region: COG0388 592205000873 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 592205000874 active site 592205000875 catalytic triad [active] 592205000876 dimer interface [polypeptide binding]; other site 592205000877 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 592205000878 active site 592205000879 catalytic site [active] 592205000880 Zn binding site [ion binding]; other site 592205000881 tetramer interface [polypeptide binding]; other site 592205000882 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 592205000883 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 592205000884 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 592205000885 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 592205000886 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 592205000887 Major Facilitator Superfamily; Region: MFS_1; pfam07690 592205000888 putative substrate translocation pore; other site 592205000889 heme oxygenase, HugZ family; Region: heme_ox_HugZ; TIGR04109 592205000890 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 592205000891 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 592205000892 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 592205000893 arginyl-tRNA synthetase; Region: argS; TIGR00456 592205000894 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 592205000895 active site 592205000896 HIGH motif; other site 592205000897 KMSK motif region; other site 592205000898 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 592205000899 tRNA binding surface [nucleotide binding]; other site 592205000900 anticodon binding site; other site 592205000901 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 592205000902 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 592205000903 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 592205000904 catalytic site [active] 592205000905 G-X2-G-X-G-K; other site 592205000906 V-type ATPase 116kDa subunit family; Region: V_ATPase_I; pfam01496 592205000907 nuclease NucT; Provisional; Region: PRK13912 592205000908 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 592205000909 putative active site [active] 592205000910 catalytic site [active] 592205000911 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205000912 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 592205000913 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 592205000914 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 592205000915 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 592205000916 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 592205000917 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 592205000918 NAD synthetase; Provisional; Region: PRK13980 592205000919 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 592205000920 homodimer interface [polypeptide binding]; other site 592205000921 NAD binding pocket [chemical binding]; other site 592205000922 ATP binding pocket [chemical binding]; other site 592205000923 Mg binding site [ion binding]; other site 592205000924 active-site loop [active] 592205000925 ketol-acid reductoisomerase; Provisional; Region: PRK05479 592205000926 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 592205000927 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 592205000928 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 592205000929 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 592205000930 Switch I; other site 592205000931 Switch II; other site 592205000932 cell division topological specificity factor MinE; Region: minE; TIGR01215 592205000933 DNA protecting protein DprA; Region: dprA; TIGR00732 592205000934 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 592205000935 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 592205000936 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 592205000937 Sel1-like repeats; Region: SEL1; smart00671 592205000938 Sel1-like repeats; Region: SEL1; smart00671 592205000939 Predicted membrane protein [Function unknown]; Region: COG3326 592205000940 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 592205000941 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 592205000942 active site 592205000943 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 592205000944 DHH family; Region: DHH; pfam01368 592205000945 DHHA1 domain; Region: DHHA1; pfam02272 592205000946 CTP synthetase; Validated; Region: pyrG; PRK05380 592205000947 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 592205000948 Catalytic site [active] 592205000949 active site 592205000950 UTP binding site [chemical binding]; other site 592205000951 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 592205000952 active site 592205000953 putative oxyanion hole; other site 592205000954 catalytic triad [active] 592205000955 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 592205000956 active site 592205000957 flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF); Region: fliF; TIGR00206 592205000958 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 592205000959 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 592205000960 flagellar motor switch protein FliG; Region: fliG; TIGR00207 592205000961 FliG C-terminal domain; Region: FliG_C; pfam01706 592205000962 flagellar assembly protein H; Validated; Region: fliH; PRK06669 592205000963 Flagellar assembly protein FliH; Region: FliH; pfam02108 592205000964 1-deoxy-D-xylulose-5-phosphate synthase; Region: dxs; TIGR00204 592205000965 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 592205000966 TPP-binding site; other site 592205000967 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 592205000968 PYR/PP interface [polypeptide binding]; other site 592205000969 dimer interface [polypeptide binding]; other site 592205000970 TPP binding site [chemical binding]; other site 592205000971 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 592205000972 GTP-binding protein LepA; Provisional; Region: PRK05433 592205000973 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 592205000974 G1 box; other site 592205000975 putative GEF interaction site [polypeptide binding]; other site 592205000976 GTP/Mg2+ binding site [chemical binding]; other site 592205000977 Switch I region; other site 592205000978 G2 box; other site 592205000979 G3 box; other site 592205000980 Switch II region; other site 592205000981 G4 box; other site 592205000982 G5 box; other site 592205000983 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 592205000984 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 592205000985 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 592205000986 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 592205000987 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 592205000988 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 592205000989 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 592205000990 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 592205000991 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 592205000992 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 592205000993 TspO/MBR family; Region: TspO_MBR; cl01379 592205000994 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 592205000995 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 592205000996 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 592205000997 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 592205000998 transketolase, bacterial and yeast; Region: tktlase_bact; TIGR00232 592205000999 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 592205001000 TPP-binding site [chemical binding]; other site 592205001001 dimer interface [polypeptide binding]; other site 592205001002 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 592205001003 PYR/PP interface [polypeptide binding]; other site 592205001004 dimer interface [polypeptide binding]; other site 592205001005 TPP binding site [chemical binding]; other site 592205001006 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 592205001007 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 592205001008 riboflavin kinase/FMN adenylyltransferase; Region: ribF; TIGR00083 592205001009 active site 592205001010 Riboflavin kinase; Region: Flavokinase; smart00904 592205001011 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 592205001012 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 592205001013 RNA binding surface [nucleotide binding]; other site 592205001014 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 592205001015 S-adenosylmethionine binding site [chemical binding]; other site 592205001016 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 592205001017 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 592205001018 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 592205001019 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 592205001020 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 592205001021 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 592205001022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 592205001023 Walker A/P-loop; other site 592205001024 ATP binding site [chemical binding]; other site 592205001025 Q-loop/lid; other site 592205001026 ABC transporter signature motif; other site 592205001027 Walker B; other site 592205001028 D-loop; other site 592205001029 H-loop/switch region; other site 592205001030 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 592205001031 Predicted endonuclease distantly related to archaeal Holliday junction resolvase and Mrr-like restriction enzymes [Defense mechanisms]; Region: COG1787 592205001032 Restriction endonuclease; Region: Mrr_cat; pfam04471 592205001033 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 592205001034 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 592205001035 active site 592205001036 Zn binding site [ion binding]; other site 592205001037 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 592205001038 metal-binding site [ion binding] 592205001039 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 592205001040 metal-binding site [ion binding] 592205001041 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 592205001042 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 592205001043 Soluble P-type ATPase [General function prediction only]; Region: COG4087 592205001044 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 592205001045 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 592205001046 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 592205001047 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 592205001048 Walker A motif; other site 592205001049 ATP binding site [chemical binding]; other site 592205001050 Walker B motif; other site 592205001051 arginine finger; other site 592205001052 Peptidase family M41; Region: Peptidase_M41; pfam01434 592205001053 ribosomal protein L11 methyltransferase; Region: prmA; TIGR00406 592205001054 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 592205001055 S-adenosylmethionine binding site [chemical binding]; other site 592205001056 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 592205001057 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 592205001058 active site 592205001059 phosphorylation site [posttranslational modification] 592205001060 intermolecular recognition site; other site 592205001061 dimerization interface [polypeptide binding]; other site 592205001062 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205001063 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 592205001064 16S rRNA (guanine(527)-N(7))-methyltransferase GidB; Region: gidB; TIGR00138 592205001065 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 592205001066 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 592205001067 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 592205001068 sec-independent translocase; Provisional; Region: PRK04098 592205001069 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 592205001070 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 592205001071 Walker A motif; other site 592205001072 ATP binding site [chemical binding]; other site 592205001073 Walker B motif; other site 592205001074 arginine finger; other site 592205001075 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 592205001076 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 592205001077 oligomerization interface [polypeptide binding]; other site 592205001078 active site 592205001079 metal binding site [ion binding]; metal-binding site 592205001080 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205001081 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205001082 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 592205001083 septum formation inhibitor; Reviewed; Region: minC; PRK00556 592205001084 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 592205001085 UDP-3-0-acyl N-acetylglucosamine deacetylase; Region: lpxC; TIGR00325 592205001086 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 592205001087 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 592205001088 homoserine kinase; Region: thrB; TIGR00191 592205001089 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 592205001090 Predicted nucleic-acid-binding protein implicated in transcription termination [Transcription]; Region: COG2740 592205001091 putative RNA binding cleft [nucleotide binding]; other site 592205001092 translation initiation factor IF-2; Region: IF-2; TIGR00487 592205001093 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 592205001094 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 592205001095 G1 box; other site 592205001096 putative GEF interaction site [polypeptide binding]; other site 592205001097 GTP/Mg2+ binding site [chemical binding]; other site 592205001098 Switch I region; other site 592205001099 G2 box; other site 592205001100 G3 box; other site 592205001101 Switch II region; other site 592205001102 G4 box; other site 592205001103 G5 box; other site 592205001104 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 592205001105 Translation-initiation factor 2; Region: IF-2; pfam11987 592205001106 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 592205001107 Ribosome-binding factor A; Region: RBFA; cl00542 592205001108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG0779 592205001109 Sm and related proteins; Region: Sm_like; cl00259 592205001110 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 592205001111 putative oligomer interface [polypeptide binding]; other site 592205001112 putative RNA binding site [nucleotide binding]; other site 592205001113 acetyl-CoA synthetase; Provisional; Region: PRK00174 592205001114 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 592205001115 active site 592205001116 CoA binding site [chemical binding]; other site 592205001117 acyl-activating enzyme (AAE) consensus motif; other site 592205001118 AMP binding site [chemical binding]; other site 592205001119 acetate binding site [chemical binding]; other site 592205001120 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 592205001121 putative active site [active] 592205001122 putative metal binding site [ion binding]; other site 592205001123 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 592205001124 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 592205001125 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 592205001126 active site 592205001127 intermolecular recognition site; other site 592205001128 dimerization interface [polypeptide binding]; other site 592205001129 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 592205001130 DNA binding site [nucleotide binding] 592205001131 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 592205001132 DHH family; Region: DHH; pfam01368 592205001133 flagellar biosynthesis protein FlhA; Region: FlhA; TIGR01398 592205001134 FHIPEP family; Region: FHIPEP; pfam00771 592205001135 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 592205001136 16S/18S rRNA binding site [nucleotide binding]; other site 592205001137 S13e-L30e interaction site [polypeptide binding]; other site 592205001138 25S rRNA binding site [nucleotide binding]; other site 592205001139 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 592205001140 O-Antigen ligase; Region: Wzy_C; pfam04932 592205001141 Dehydroquinase class II; Region: DHquinase_II; pfam01220 592205001142 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 592205001143 trimer interface [polypeptide binding]; other site 592205001144 active site 592205001145 dimer interface [polypeptide binding]; other site 592205001146 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 592205001147 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 592205001148 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 592205001149 active site 592205001150 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 592205001151 catalytic center binding site [active] 592205001152 ATP binding site [chemical binding]; other site 592205001153 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 592205001154 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 592205001155 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 592205001156 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 592205001157 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 592205001158 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 592205001159 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 592205001160 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 592205001161 DNA binding residues [nucleotide binding] 592205001162 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 592205001163 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 592205001164 flagellar motor switch protein FliY; Validated; Region: PRK08432 592205001165 flagellar motor switch protein FliN; Region: fliN; TIGR02480 592205001166 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 592205001167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 592205001168 ferric uptake regulator; Provisional; Region: fur; PRK09462 592205001169 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 592205001170 metal binding site 2 [ion binding]; metal-binding site 592205001171 putative DNA binding helix; other site 592205001172 metal binding site 1 [ion binding]; metal-binding site 592205001173 dimer interface [polypeptide binding]; other site 592205001174 structural Zn2+ binding site [ion binding]; other site 592205001175 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]; Region: MGS1; COG2256 592205001176 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 592205001177 Walker A motif; other site 592205001178 ATP binding site [chemical binding]; other site 592205001179 Walker B motif; other site 592205001180 arginine finger; other site 592205001181 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 592205001182 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 592205001183 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 592205001184 DNA binding residues [nucleotide binding] 592205001185 putative dimer interface [polypeptide binding]; other site 592205001186 chaperone protein DnaJ; Provisional; Region: PRK14299 592205001187 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 592205001188 HSP70 interaction site [polypeptide binding]; other site 592205001189 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 592205001190 substrate binding site [polypeptide binding]; other site 592205001191 dimer interface [polypeptide binding]; other site 592205001192 5'-3' exonuclease; Provisional; Region: PRK14976 592205001193 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 592205001194 putative active site [active] 592205001195 Helix-hairpin-helix class 2 (Pol1 family) motifs; Region: HhH2; smart00279 592205001196 DNA binding site [nucleotide binding] 592205001197 metal binding site [ion binding]; metal-binding site 592205001198 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 592205001199 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 592205001200 active site 592205001201 dimerization interface [polypeptide binding]; other site 592205001202 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 592205001203 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 592205001204 substrate binding site; other site 592205001205 dimer interface; other site 592205001206 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 592205001207 homotrimer interaction site [polypeptide binding]; other site 592205001208 zinc binding site [ion binding]; other site 592205001209 CDP-binding sites; other site 592205001210 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 592205001211 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 592205001212 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 592205001213 protein binding site [polypeptide binding]; other site 592205001214 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 592205001215 protein binding site [polypeptide binding]; other site 592205001216 S-methylmethionine transporter; Provisional; Region: PRK11387 592205001217 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 592205001218 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 592205001219 1-cyclohexenylcarbonyl_coenzyme A_reductase (ChcA)_like, classical (c) SDRs; Region: ChcA_like_SDR_c; cd05359 592205001220 putative NAD(P) binding site [chemical binding]; other site 592205001221 active site 592205001222 dihydrodipicolinate synthase; Region: dapA; TIGR00674 592205001223 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 592205001224 dimer interface [polypeptide binding]; other site 592205001225 active site 592205001226 catalytic residue [active] 592205001227 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 592205001228 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 592205001229 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 592205001230 dihydroorotate dehydrogenase, subfamily 2; Region: pyrD_sub2; TIGR01036 592205001231 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 592205001232 quinone interaction residues [chemical binding]; other site 592205001233 active site 592205001234 catalytic residues [active] 592205001235 FMN binding site [chemical binding]; other site 592205001236 substrate binding site [chemical binding]; other site 592205001237 Polyphosphate kinase [Inorganic ion transport and metabolism]; Region: Ppk; COG0855 592205001238 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 592205001239 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 592205001240 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 592205001241 putative domain interface [polypeptide binding]; other site 592205001242 putative active site [active] 592205001243 catalytic site [active] 592205001244 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 592205001245 putative active site [active] 592205001246 putative domain interface [polypeptide binding]; other site 592205001247 catalytic site [active] 592205001248 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 592205001249 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 592205001250 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 592205001251 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 592205001252 Methyltransferase domain; Region: Methyltransf_26; pfam13659 592205001253 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 592205001254 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 592205001255 putative metal binding site [ion binding]; other site 592205001256 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 592205001257 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 592205001258 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 592205001259 active site 592205001260 Zn binding site [ion binding]; other site 592205001261 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 592205001262 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 592205001263 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205001264 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 592205001265 molybdenum ABC transporter, periplasmic molybdate-binding protein; Region: modA; TIGR01256 592205001266 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 592205001267 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 592205001268 dimer interface [polypeptide binding]; other site 592205001269 conserved gate region; other site 592205001270 putative PBP binding loops; other site 592205001271 ABC-ATPase subunit interface; other site 592205001272 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 592205001273 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 592205001274 Walker A/P-loop; other site 592205001275 ATP binding site [chemical binding]; other site 592205001276 Q-loop/lid; other site 592205001277 ABC transporter signature motif; other site 592205001278 Walker B; other site 592205001279 D-loop; other site 592205001280 H-loop/switch region; other site 592205001281 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 592205001282 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 592205001283 active site 592205001284 HIGH motif; other site 592205001285 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 592205001286 active site 592205001287 KMSKS motif; other site 592205001288 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205001289 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 592205001290 Methyltransferase domain; Region: Methyltransf_26; pfam13659 592205001291 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 592205001292 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 592205001293 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 592205001294 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 592205001295 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 592205001296 G1 box; other site 592205001297 putative GEF interaction site [polypeptide binding]; other site 592205001298 GTP/Mg2+ binding site [chemical binding]; other site 592205001299 Switch I region; other site 592205001300 G2 box; other site 592205001301 G3 box; other site 592205001302 Switch II region; other site 592205001303 G4 box; other site 592205001304 G5 box; other site 592205001305 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 592205001306 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 592205001307 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 592205001308 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 592205001309 cofactor binding site; other site 592205001310 DNA binding site [nucleotide binding] 592205001311 substrate interaction site [chemical binding]; other site 592205001312 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 592205001313 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 592205001314 putative heme binding pocket [chemical binding]; other site 592205001315 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 592205001316 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 592205001317 Uncharacterized conserved protein [Function unknown]; Region: COG1432 592205001318 LabA_like proteins; Region: LabA_like; cd06167 592205001319 putative metal binding site [ion binding]; other site 592205001320 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 592205001321 active site 592205001322 putative DNA-binding cleft [nucleotide binding]; other site 592205001323 dimer interface [polypeptide binding]; other site 592205001324 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 592205001325 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 592205001326 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 592205001327 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 592205001328 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 592205001329 tetramer interface [polypeptide binding]; other site 592205001330 heme binding pocket [chemical binding]; other site 592205001331 NADPH binding site [chemical binding]; other site 592205001332 alkylphosphonate utilization operon protein PhnA; Region: phnA; TIGR00686 592205001333 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 592205001334 PhnA protein; Region: PhnA; pfam03831 592205001335 CDP-diacylglycerol pyrophosphatase, bacterial type; Region: cdh; TIGR00672 592205001336 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 592205001337 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 592205001338 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 592205001339 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 592205001340 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 592205001341 hydrogenase nickel incorporation protein; Provisional; Region: hypA; PRK00564 592205001342 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 592205001343 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 592205001344 lipid-A-disaccharide synthase; Region: lpxB; TIGR00215 592205001345 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 592205001346 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 592205001347 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 592205001348 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 592205001349 trimer interface [polypeptide binding]; other site 592205001350 active site 592205001351 PQQ-like domain; Region: PQQ_2; pfam13360 592205001352 pantothenate kinase; Reviewed; Region: PRK13333 592205001353 Uncharacterized conserved protein [Function unknown]; Region: COG2836 592205001354 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 592205001355 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 592205001356 active site 592205001357 motif I; other site 592205001358 motif II; other site 592205001359 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 592205001360 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 592205001361 NAD(P) binding site [chemical binding]; other site 592205001362 active site 592205001363 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 592205001364 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 592205001365 putative ribose interaction site [chemical binding]; other site 592205001366 putative ADP binding site [chemical binding]; other site 592205001367 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 592205001368 active site 592205001369 nucleotide binding site [chemical binding]; other site 592205001370 HIGH motif; other site 592205001371 KMSKS motif; other site 592205001372 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 592205001373 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 592205001374 dimer interface [polypeptide binding]; other site 592205001375 active site 592205001376 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 592205001377 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 592205001378 active site 592205001379 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 592205001380 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 592205001381 Walker A/P-loop; other site 592205001382 ATP binding site [chemical binding]; other site 592205001383 Q-loop/lid; other site 592205001384 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 592205001385 ABC transporter; Region: ABC_tran_2; pfam12848 592205001386 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 592205001387 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 592205001388 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 592205001389 active site 592205001390 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 592205001391 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 592205001392 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 592205001393 substrate binding site [chemical binding]; other site 592205001394 multimerization interface [polypeptide binding]; other site 592205001395 ATP binding site [chemical binding]; other site 592205001396 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 592205001397 dimer interface [polypeptide binding]; other site 592205001398 substrate binding site [chemical binding]; other site 592205001399 ATP binding site [chemical binding]; other site 592205001400 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 592205001401 thiamine phosphate binding site [chemical binding]; other site 592205001402 active site 592205001403 pyrophosphate binding site [ion binding]; other site 592205001404 phosphopantothenoylcysteine decarboxylase / phosphopantothenate--cysteine ligase; Region: coaBC_dfp; TIGR00521 592205001405 Flavoprotein; Region: Flavoprotein; pfam02441 592205001406 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 592205001407 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 592205001408 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 592205001409 NAD(P) binding site [chemical binding]; other site 592205001410 homodimer interface [polypeptide binding]; other site 592205001411 substrate binding site [chemical binding]; other site 592205001412 active site 592205001413 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 592205001414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 592205001415 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3018 592205001416 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 592205001417 IHF dimer interface [polypeptide binding]; other site 592205001418 IHF - DNA interface [nucleotide binding]; other site 592205001419 GTP-binding protein Der; Reviewed; Region: PRK00093 592205001420 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 592205001421 G1 box; other site 592205001422 GTP/Mg2+ binding site [chemical binding]; other site 592205001423 Switch I region; other site 592205001424 G2 box; other site 592205001425 Switch II region; other site 592205001426 G3 box; other site 592205001427 G4 box; other site 592205001428 G5 box; other site 592205001429 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 592205001430 G1 box; other site 592205001431 GTP/Mg2+ binding site [chemical binding]; other site 592205001432 Switch I region; other site 592205001433 G2 box; other site 592205001434 G3 box; other site 592205001435 Switch II region; other site 592205001436 G4 box; other site 592205001437 G5 box; other site 592205001438 spermidine synthase; Provisional; Region: speE; PRK00536 592205001439 spermidine synthase; Provisional; Region: PRK00811 592205001440 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 592205001441 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 592205001442 CoA-binding site [chemical binding]; other site 592205001443 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, A subunit; Region: gatA; TIGR00132 592205001444 indole acetimide hydrolase; Validated; Region: PRK07488 592205001445 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 592205001446 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 592205001447 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 592205001448 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 592205001449 active site 592205001450 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 592205001451 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 592205001452 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 592205001453 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 592205001454 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 592205001455 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 592205001456 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 592205001457 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 592205001458 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 592205001459 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 592205001460 catalytic residues [active] 592205001461 Predicted endonuclease distantly related to archaeal Holliday junction resolvase [DNA replication, recombination, and repair]; Region: COG0792 592205001462 homoserine dehydrogenase; Provisional; Region: PRK06349 592205001463 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 592205001464 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 592205001465 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 592205001466 excinuclease ABC, C subunit; Region: uvrC; TIGR00194 592205001467 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 592205001468 GIY-YIG motif/motif A; other site 592205001469 active site 592205001470 catalytic site [active] 592205001471 putative DNA binding site [nucleotide binding]; other site 592205001472 metal binding site [ion binding]; metal-binding site 592205001473 UvrB/uvrC motif; Region: UVR; pfam02151 592205001474 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 592205001475 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 592205001476 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 592205001477 Walker A/P-loop; other site 592205001478 ATP binding site [chemical binding]; other site 592205001479 Q-loop/lid; other site 592205001480 ABC transporter signature motif; other site 592205001481 Walker B; other site 592205001482 D-loop; other site 592205001483 H-loop/switch region; other site 592205001484 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 592205001485 dimer interface [polypeptide binding]; other site 592205001486 conserved gate region; other site 592205001487 ABC-ATPase subunit interface; other site 592205001488 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 592205001489 flagellar motor protein MotB; Reviewed; Region: motB; PRK08457 592205001490 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 592205001491 ligand binding site [chemical binding]; other site 592205001492 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 592205001493 flagellar motor protein MotA; Validated; Region: PRK08456 592205001494 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 592205001495 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 592205001496 ATP binding site [chemical binding]; other site 592205001497 substrate interface [chemical binding]; other site 592205001498 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 592205001499 Uncharacterized conserved protein [Function unknown]; Region: COG1565 592205001500 RNA methyltransferase, RsmD family; Region: TIGR00095 592205001501 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 592205001502 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 592205001503 holo-[acyl-carrier-protein] synthase; Region: acpS; TIGR00516 592205001504 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 592205001505 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 592205001506 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 592205001507 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: ribB; TIGR00506 592205001508 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 592205001509 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 592205001510 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 592205001511 dimerization interface [polypeptide binding]; other site 592205001512 active site 592205001513 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 592205001514 MoaE interaction surface [polypeptide binding]; other site 592205001515 MoeB interaction surface [polypeptide binding]; other site 592205001516 thiocarboxylated glycine; other site 592205001517 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 592205001518 MoaE homodimer interface [polypeptide binding]; other site 592205001519 MoaD interaction [polypeptide binding]; other site 592205001520 active site residues [active] 592205001521 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 592205001522 MPT binding site; other site 592205001523 trimer interface [polypeptide binding]; other site 592205001524 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 592205001525 trimer interface [polypeptide binding]; other site 592205001526 dimer interface [polypeptide binding]; other site 592205001527 putative active site [active] 592205001528 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 592205001529 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205001530 trigger factor; Provisional; Region: tig; PRK01490 592205001531 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 592205001532 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 592205001533 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 592205001534 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 592205001535 oligomer interface [polypeptide binding]; other site 592205001536 active site residues [active] 592205001537 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 592205001538 active site 592205001539 catalytic residues [active] 592205001540 metal binding site [ion binding]; metal-binding site 592205001541 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 592205001542 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 592205001543 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 592205001544 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 592205001545 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 592205001546 metal-binding site [ion binding] 592205001547 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 592205001548 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 592205001549 Soluble P-type ATPase [General function prediction only]; Region: COG4087 592205001550 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 592205001551 Probable transposase; Region: OrfB_IS605; pfam01385 592205001552 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 592205001553 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 592205001554 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 592205001555 DNA binding residues [nucleotide binding] 592205001556 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 592205001557 catalytic residues [active] 592205001558 catalytic nucleophile [active] 592205001559 YcfA-like protein; Region: YcfA; cl00752 592205001560 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 592205001561 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 592205001562 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 592205001563 FtsX-like permease family; Region: FtsX; pfam02687 592205001564 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 592205001565 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 592205001566 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 592205001567 nucleotide binding region [chemical binding]; other site 592205001568 ATP-binding site [chemical binding]; other site 592205001569 SEC-C motif; Region: SEC-C; pfam02810 592205001570 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 592205001571 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 592205001572 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 592205001573 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 592205001574 aconitate hydratase 2; Region: acnB; TIGR00117 592205001575 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 592205001576 substrate binding site [chemical binding]; other site 592205001577 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 592205001578 substrate binding site [chemical binding]; other site 592205001579 ligand binding site [chemical binding]; other site 592205001580 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 592205001581 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 592205001582 putative nucleotide binding site [chemical binding]; other site 592205001583 uridine monophosphate binding site [chemical binding]; other site 592205001584 homohexameric interface [polypeptide binding]; other site 592205001585 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 592205001586 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 592205001587 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 592205001588 Zn2+ binding site [ion binding]; other site 592205001589 Mg2+ binding site [ion binding]; other site 592205001590 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 592205001591 synthetase active site [active] 592205001592 NTP binding site [chemical binding]; other site 592205001593 metal binding site [ion binding]; metal-binding site 592205001594 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 592205001595 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 592205001596 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 592205001597 active site 592205001598 HIGH motif; other site 592205001599 dimer interface [polypeptide binding]; other site 592205001600 KMSKS motif; other site 592205001601 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 592205001602 RNA binding surface [nucleotide binding]; other site 592205001603 Nitronate monooxygenase; Region: NMO; pfam03060 592205001604 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 592205001605 FMN binding site [chemical binding]; other site 592205001606 substrate binding site [chemical binding]; other site 592205001607 putative catalytic residue [active] 592205001608 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 592205001609 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 592205001610 active site 592205001611 metal binding site [ion binding]; metal-binding site 592205001612 flagellar biosynthetic protein FlhB; Region: flhB; TIGR00328 592205001613 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 592205001614 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 592205001615 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 592205001616 GTP binding site; other site 592205001617 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 592205001618 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 592205001619 FeS/SAM binding site; other site 592205001620 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 592205001621 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 592205001622 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 592205001623 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 592205001624 phosphodiesterase; Provisional; Region: PRK12704 592205001625 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 592205001626 nucleic acid binding region [nucleotide binding]; other site 592205001627 G-X-X-G motif; other site 592205001628 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 592205001629 Zn2+ binding site [ion binding]; other site 592205001630 Mg2+ binding site [ion binding]; other site 592205001631 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 592205001632 putative efflux protein, MATE family; Region: matE; TIGR00797 592205001633 Predicted permease [General function prediction only]; Region: COG2056 592205001634 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 592205001635 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 592205001636 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 592205001637 putative active site; other site 592205001638 catalytic triad [active] 592205001639 putative dimer interface [polypeptide binding]; other site 592205001640 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 592205001641 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 592205001642 putative ATP binding site [chemical binding]; other site 592205001643 putative substrate interface [chemical binding]; other site 592205001644 flagellar biosynthetic protein FliS; Region: fliS; TIGR00208 592205001645 flagellar capping protein; Validated; Region: fliD; PRK08453 592205001646 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 592205001647 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 592205001648 flagellar protein FlaG; Provisional; Region: PRK08452 592205001649 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 592205001650 Peptidase family M23; Region: Peptidase_M23; pfam01551 592205001651 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 592205001652 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 592205001653 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 592205001654 Walker A/P-loop; other site 592205001655 ATP binding site [chemical binding]; other site 592205001656 Q-loop/lid; other site 592205001657 ABC transporter signature motif; other site 592205001658 Walker B; other site 592205001659 D-loop; other site 592205001660 H-loop/switch region; other site 592205001661 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 592205001662 S-adenosylmethionine binding site [chemical binding]; other site 592205001663 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 592205001664 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 592205001665 Interdomain contacts; other site 592205001666 Cytokine receptor motif; other site 592205001667 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 592205001668 Interdomain contacts; other site 592205001669 Cytokine receptor motif; other site 592205001670 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 592205001671 Interdomain contacts; other site 592205001672 Cytokine receptor motif; other site 592205001673 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 592205001674 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 592205001675 active site 592205001676 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 592205001677 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 592205001678 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 592205001679 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 592205001680 active site 592205001681 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 592205001682 nucleotide binding site/active site [active] 592205001683 HIT family signature motif; other site 592205001684 catalytic residue [active] 592205001685 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 592205001686 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 592205001687 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 592205001688 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 592205001689 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 592205001690 ATP-grasp domain; Region: ATP-grasp_4; cl17255 592205001691 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 592205001692 tetramer interfaces [polypeptide binding]; other site 592205001693 binuclear metal-binding site [ion binding]; other site 592205001694 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 592205001695 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 592205001696 catalytic residue [active] 592205001697 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 592205001698 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 592205001699 active site 592205001700 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 592205001701 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 592205001702 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 592205001703 FeS/SAM binding site; other site 592205001704 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 592205001705 G1 box; other site 592205001706 GTP/Mg2+ binding site [chemical binding]; other site 592205001707 Switch I region; other site 592205001708 G3 box; other site 592205001709 Switch II region; other site 592205001710 G4 box; other site 592205001711 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 592205001712 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 592205001713 Ligand Binding Site [chemical binding]; other site 592205001714 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 592205001715 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 592205001716 FMN binding site [chemical binding]; other site 592205001717 active site 592205001718 catalytic residues [active] 592205001719 substrate binding site [chemical binding]; other site 592205001720 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205001721 anaerobic c4-dicarboxylate membrane transporter family protein; Region: Dcu; TIGR00770 592205001722 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 592205001723 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 592205001724 active site 592205001725 homodimer interface [polypeptide binding]; other site 592205001726 homotetramer interface [polypeptide binding]; other site 592205001727 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 592205001728 Protein of unknown function (DUF1104); Region: DUF1104; pfam06518 592205001729 Lysine efflux permease [General function prediction only]; Region: COG1279 592205001730 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 592205001731 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 592205001732 Walker A motif; other site 592205001733 ATP binding site [chemical binding]; other site 592205001734 Walker B motif; other site 592205001735 arginine finger; other site 592205001736 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 592205001737 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 592205001738 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 592205001739 Walker A/P-loop; other site 592205001740 ATP binding site [chemical binding]; other site 592205001741 Q-loop/lid; other site 592205001742 ABC transporter signature motif; other site 592205001743 Walker B; other site 592205001744 D-loop; other site 592205001745 H-loop/switch region; other site 592205001746 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 592205001747 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 592205001748 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 592205001749 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 592205001750 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 592205001751 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 592205001752 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205001753 Uncharacterized conserved protein [Function unknown]; Region: COG1912 592205001754 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 592205001755 16S rRNA (cytosine(1402)-N(4))-methyltransferase; Region: TIGR00006 592205001756 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205001757 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 592205001758 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 592205001759 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 592205001760 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 592205001761 Response regulator receiver domain; Region: Response_reg; pfam00072 592205001762 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 592205001763 active site 592205001764 phosphorylation site [posttranslational modification] 592205001765 intermolecular recognition site; other site 592205001766 dimerization interface [polypeptide binding]; other site 592205001767 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 592205001768 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 592205001769 Walker A motif; other site 592205001770 ATP binding site [chemical binding]; other site 592205001771 Walker B motif; other site 592205001772 arginine finger; other site 592205001773 DNA gyrase subunit A; Validated; Region: PRK05560 592205001774 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 592205001775 CAP-like domain; other site 592205001776 active site 592205001777 primary dimer interface [polypeptide binding]; other site 592205001778 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 592205001779 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 592205001780 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 592205001781 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 592205001782 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 592205001783 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 592205001784 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 592205001785 Uncharacterized conserved protein [Function unknown]; Region: COG1479 592205001786 Protein of unknown function DUF262; Region: DUF262; pfam03235 592205001787 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 592205001788 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 592205001789 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 592205001790 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 592205001791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3528 592205001792 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 592205001793 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 592205001794 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 592205001795 putative acyltransferase; Provisional; Region: PRK05790 592205001796 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 592205001797 dimer interface [polypeptide binding]; other site 592205001798 active site 592205001799 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 592205001800 active site 592205001801 catalytic site [active] 592205001802 substrate binding site [chemical binding]; other site 592205001803 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 592205001804 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 592205001805 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 592205001806 G1 box; other site 592205001807 GTP/Mg2+ binding site [chemical binding]; other site 592205001808 Switch I region; other site 592205001809 G2 box; other site 592205001810 G3 box; other site 592205001811 Switch II region; other site 592205001812 G4 box; other site 592205001813 G5 box; other site 592205001814 Nucleoside recognition; Region: Gate; pfam07670 592205001815 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 592205001816 Nucleoside recognition; Region: Gate; pfam07670 592205001817 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 592205001818 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 592205001819 N-terminal plug; other site 592205001820 ligand-binding site [chemical binding]; other site 592205001821 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 592205001822 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 592205001823 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 592205001824 Substrate binding site; other site 592205001825 Mg++ binding site; other site 592205001826 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 592205001827 active site 592205001828 substrate binding site [chemical binding]; other site 592205001829 CoA binding site [chemical binding]; other site 592205001830 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 592205001831 ATP cone domain; Region: ATP-cone; pfam03477 592205001832 Class I ribonucleotide reductase; Region: RNR_I; cd01679 592205001833 active site 592205001834 dimer interface [polypeptide binding]; other site 592205001835 catalytic residues [active] 592205001836 effector binding site; other site 592205001837 R2 peptide binding site; other site 592205001838 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 592205001839 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 592205001840 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 592205001841 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 592205001842 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 592205001843 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 592205001844 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 592205001845 DNA binding site [nucleotide binding] 592205001846 active site 592205001847 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 592205001848 active site 592205001849 DNA binding site [nucleotide binding] 592205001850 Int/Topo IB signature motif; other site 592205001851 aspartate aminotransferase; Provisional; Region: PRK05764 592205001852 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 592205001853 pyridoxal 5'-phosphate binding site [chemical binding]; other site 592205001854 homodimer interface [polypeptide binding]; other site 592205001855 catalytic residue [active] 592205001856 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205001857 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 592205001858 Probable transposase; Region: OrfB_IS605; pfam01385 592205001859 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 592205001860 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 592205001861 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 592205001862 DNA binding residues [nucleotide binding] 592205001863 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 592205001864 catalytic residues [active] 592205001865 catalytic nucleophile [active] 592205001866 YcfA-like protein; Region: YcfA; cl00752 592205001867 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 592205001868 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 592205001869 Cysteine-rich domain; Region: CCG; pfam02754 592205001870 Cysteine-rich domain; Region: CCG; pfam02754 592205001871 oxygen-independent coproporphyrinogen III oxidase; Region: hemN; TIGR00538 592205001872 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 592205001873 FeS/SAM binding site; other site 592205001874 HemN C-terminal domain; Region: HemN_C; pfam06969 592205001875 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 592205001876 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 592205001877 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 592205001878 Tetramer interface [polypeptide binding]; other site 592205001879 active site 592205001880 FMN-binding site [chemical binding]; other site 592205001881 ribonuclease III; Reviewed; Region: rnc; PRK00102 592205001882 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 592205001883 dimerization interface [polypeptide binding]; other site 592205001884 active site 592205001885 metal binding site [ion binding]; metal-binding site 592205001886 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 592205001887 dsRNA binding site [nucleotide binding]; other site 592205001888 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 592205001889 RNA/DNA hybrid binding site [nucleotide binding]; other site 592205001890 active site 592205001891 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 592205001892 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]; Region: COG1439 592205001893 SurA N-terminal domain; Region: SurA_N; pfam09312 592205001894 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 592205001895 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 592205001896 GatB domain; Region: GatB_Yqey; smart00845 592205001897 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 592205001898 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 592205001899 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 592205001900 hypothetical protein; Provisional; Region: PRK08445 592205001901 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 592205001902 FeS/SAM binding site; other site 592205001903 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 592205001904 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 592205001905 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 592205001906 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 592205001907 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 592205001908 Surface antigen; Region: Bac_surface_Ag; pfam01103 592205001909 hypothetical protein; Provisional; Region: PRK08444 592205001910 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 592205001911 FeS/SAM binding site; other site 592205001912 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 592205001913 Ferritin-like domain; Region: Ferritin; pfam00210 592205001914 ferroxidase diiron center [ion binding]; other site 592205001915 phosphoserine phosphatase SerB; Region: serB; TIGR00338 592205001916 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 592205001917 motif II; other site 592205001918 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 592205001919 Growth-arrest specific micro-tubule binding; Region: GAS; pfam13851 592205001920 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_2; cd10034 592205001921 putative uracil binding site [chemical binding]; other site 592205001922 putative active site [active] 592205001923 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 592205001924 Aspartase; Region: Aspartase; cd01357 592205001925 active sites [active] 592205001926 tetramer interface [polypeptide binding]; other site 592205001927 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 592205001928 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 592205001929 hinge; other site 592205001930 active site 592205001931 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 592205001932 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 592205001933 active site 592205001934 tetramer interface; other site 592205001935 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 592205001936 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 592205001937 N-acetyl-D-glucosamine binding site [chemical binding]; other site 592205001938 catalytic residue [active] 592205001939 YGGT family; Region: YGGT; pfam02325 592205001940 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 592205001941 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 592205001942 active site 592205001943 HIGH motif; other site 592205001944 nucleotide binding site [chemical binding]; other site 592205001945 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 592205001946 active site 592205001947 KMSKS motif; other site 592205001948 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 592205001949 dimer interface [polypeptide binding]; other site 592205001950 FMN binding site [chemical binding]; other site 592205001951 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 592205001952 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 592205001953 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 592205001954 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 592205001955 active site 592205001956 NTP binding site [chemical binding]; other site 592205001957 metal binding triad [ion binding]; metal-binding site 592205001958 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 592205001959 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 592205001960 Ligand Binding Site [chemical binding]; other site 592205001961 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205001962 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 592205001963 nickel binding site [ion binding]; other site 592205001964 putative substrate-binding site; other site 592205001965 Ni,Fe-hydrogenase I cytochrome b subunit [Energy production and conversion]; Region: HyaC; COG1969 592205001966 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 592205001967 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 592205001968 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 592205001969 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 592205001970 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 592205001971 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 592205001972 Sel1-like repeats; Region: SEL1; smart00671 592205001973 Sel1-like repeats; Region: SEL1; smart00671 592205001974 Sel1 repeat; Region: Sel1; cl02723 592205001975 Sel1-like repeats; Region: SEL1; smart00671 592205001976 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 592205001977 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 592205001978 putative trimer interface [polypeptide binding]; other site 592205001979 putative CoA binding site [chemical binding]; other site 592205001980 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 592205001981 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 592205001982 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 592205001983 hypothetical protein; Provisional; Region: PRK05839 592205001984 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 592205001985 pyridoxal 5'-phosphate binding site [chemical binding]; other site 592205001986 homodimer interface [polypeptide binding]; other site 592205001987 catalytic residue [active] 592205001988 UDP-N-acetylmuramate--alanine ligase; Region: murC; TIGR01082 592205001989 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 592205001990 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 592205001991 MutS2 family protein; Region: mutS2; TIGR01069 592205001992 ATPase domain of DNA mismatch repair MUTS family; Region: MUTSac; smart00534 592205001993 Walker A/P-loop; other site 592205001994 ATP binding site [chemical binding]; other site 592205001995 Q-loop/lid; other site 592205001996 ABC transporter signature motif; other site 592205001997 Walker B; other site 592205001998 D-loop; other site 592205001999 H-loop/switch region; other site 592205002000 Smr domain; Region: Smr; pfam01713 592205002001 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 592205002002 dimer interface [polypeptide binding]; other site 592205002003 substrate binding site [chemical binding]; other site 592205002004 metal binding sites [ion binding]; metal-binding site 592205002005 adenylate kinase; Reviewed; Region: adk; PRK00279 592205002006 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 592205002007 AMP-binding site [chemical binding]; other site 592205002008 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 592205002009 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 592205002010 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 592205002011 dimer interface [polypeptide binding]; other site 592205002012 anticodon binding site; other site 592205002013 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 592205002014 homodimer interface [polypeptide binding]; other site 592205002015 motif 1; other site 592205002016 active site 592205002017 motif 2; other site 592205002018 GAD domain; Region: GAD; pfam02938 592205002019 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 592205002020 active site 592205002021 motif 3; other site 592205002022 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 592205002023 Response regulator receiver domain; Region: Response_reg; pfam00072 592205002024 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 592205002025 active site 592205002026 phosphorylation site [posttranslational modification] 592205002027 intermolecular recognition site; other site 592205002028 dimerization interface [polypeptide binding]; other site 592205002029 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 592205002030 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 592205002031 nucleotide binding pocket [chemical binding]; other site 592205002032 K-X-D-G motif; other site 592205002033 catalytic site [active] 592205002034 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 592205002035 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 592205002036 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 592205002037 Dimer interface [polypeptide binding]; other site 592205002038 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 592205002039 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 592205002040 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 592205002041 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 592205002042 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 592205002043 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 592205002044 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 592205002045 Autotransporter beta-domain; Region: Autotransporter; pfam03797 592205002046 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205002047 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 592205002048 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 592205002049 HlyD family secretion protein; Region: HlyD_3; pfam13437 592205002050 Outer membrane efflux protein; Region: OEP; pfam02321 592205002051 Outer membrane efflux protein; Region: OEP; pfam02321 592205002052 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 592205002053 substrate binding site [chemical binding]; other site 592205002054 active site 592205002055 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 592205002056 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 592205002057 minor groove reading motif; other site 592205002058 helix-hairpin-helix signature motif; other site 592205002059 active site 592205002060 flagellin A; Reviewed; Region: PRK12584 592205002061 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 592205002062 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 592205002063 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 592205002064 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 592205002065 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 592205002066 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 592205002067 Walker A/P-loop; other site 592205002068 ATP binding site [chemical binding]; other site 592205002069 Q-loop/lid; other site 592205002070 ABC transporter signature motif; other site 592205002071 Walker B; other site 592205002072 D-loop; other site 592205002073 H-loop/switch region; other site 592205002074 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 592205002075 dimer interface [polypeptide binding]; other site 592205002076 putative CheW interface [polypeptide binding]; other site 592205002077 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 592205002078 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 592205002079 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 592205002080 catalytic residue [active] 592205002081 Transglycosylase; Region: Transgly; pfam00912 592205002082 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 592205002083 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 592205002084 tumor necrosis factor alpha-inducing protein; Reviewed; Region: PRK12303 592205002085 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 592205002086 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 592205002087 DNA methylase; Region: N6_N4_Mtase; pfam01555 592205002088 DNA methylase; Region: N6_N4_Mtase; pfam01555 592205002089 Restriction endonuclease [Defense mechanisms]; Region: COG3587 592205002090 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 592205002091 ATP binding site [chemical binding]; other site 592205002092 putative Mg++ binding site [ion binding]; other site 592205002093 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 592205002094 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 592205002095 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 592205002096 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 592205002097 TPP-binding site [chemical binding]; other site 592205002098 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 592205002099 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 592205002100 dimer interface [polypeptide binding]; other site 592205002101 PYR/PP interface [polypeptide binding]; other site 592205002102 TPP binding site [chemical binding]; other site 592205002103 substrate binding site [chemical binding]; other site 592205002104 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 592205002105 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 592205002106 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 592205002107 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 592205002108 dimerization interface [polypeptide binding]; other site 592205002109 Protein of unknown function; Region: DUF3971; pfam13116 592205002110 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 592205002111 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 592205002112 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 592205002113 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 592205002114 minor groove reading motif; other site 592205002115 helix-hairpin-helix signature motif; other site 592205002116 substrate binding pocket [chemical binding]; other site 592205002117 active site 592205002118 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 592205002119 flagellar motor switch protein; Validated; Region: PRK08433 592205002120 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 592205002121 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 592205002122 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 592205002123 active site 592205002124 substrate binding pocket [chemical binding]; other site 592205002125 dimer interface [polypeptide binding]; other site 592205002126 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 592205002127 BNR repeat-like domain; Region: BNR_2; pfam13088 592205002128 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 592205002129 Sulfatase; Region: Sulfatase; pfam00884 592205002130 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 592205002131 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 592205002132 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 592205002133 homodimer interface [polypeptide binding]; other site 592205002134 NADP binding site [chemical binding]; other site 592205002135 substrate binding site [chemical binding]; other site 592205002136 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 592205002137 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 592205002138 Catalytic site [active] 592205002139 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 592205002140 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 592205002141 Peptidase family M50; Region: Peptidase_M50; pfam02163 592205002142 active site 592205002143 putative substrate binding region [chemical binding]; other site 592205002144 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 592205002145 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 592205002146 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 592205002147 active site 592205002148 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 592205002149 multifunctional aminopeptidase A; Provisional; Region: PRK00913 592205002150 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 592205002151 interface (dimer of trimers) [polypeptide binding]; other site 592205002152 Substrate-binding/catalytic site; other site 592205002153 Zn-binding sites [ion binding]; other site 592205002154 GTP-binding protein YchF; Reviewed; Region: PRK09601 592205002155 YchF GTPase; Region: YchF; cd01900 592205002156 G1 box; other site 592205002157 GTP/Mg2+ binding site [chemical binding]; other site 592205002158 Switch I region; other site 592205002159 G2 box; other site 592205002160 Switch II region; other site 592205002161 G3 box; other site 592205002162 G4 box; other site 592205002163 G5 box; other site 592205002164 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 592205002165 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 592205002166 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 592205002167 Domain of unknown function DUF20; Region: UPF0118; pfam01594 592205002168 diaminopimelate epimerase; Region: DapF; TIGR00652 592205002169 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 592205002170 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 592205002171 Predicted membrane protein [Function unknown]; Region: COG3059 592205002172 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 592205002173 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 592205002174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 592205002175 NAD(P) binding site [chemical binding]; other site 592205002176 active site 592205002177 acyl carrier protein; Provisional; Region: acpP; PRK00982 592205002178 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 592205002179 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 592205002180 dimer interface [polypeptide binding]; other site 592205002181 active site 592205002182 acetyl-CoA carboxylase, carboxyl transferase, alpha subunit; Region: accA; TIGR00513 592205002183 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 592205002184 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 592205002185 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 592205002186 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 592205002187 Predicted methyltransferases [General function prediction only]; Region: COG0313 592205002188 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 592205002189 putative SAM binding site [chemical binding]; other site 592205002190 putative homodimer interface [polypeptide binding]; other site 592205002191 Ribosomal protein L31; Region: Ribosomal_L31; pfam01197 592205002192 transcription termination factor Rho; Provisional; Region: rho; PRK09376 592205002193 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 592205002194 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 592205002195 RNA binding site [nucleotide binding]; other site 592205002196 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 592205002197 multimer interface [polypeptide binding]; other site 592205002198 Walker A motif; other site 592205002199 ATP binding site [chemical binding]; other site 592205002200 Walker B motif; other site 592205002201 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 592205002202 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 592205002203 Sel1-like repeats; Region: SEL1; smart00671 592205002204 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 592205002205 GTPase [General function prediction only]; Region: Era; COG1159 592205002206 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 592205002207 G1 box; other site 592205002208 GTP/Mg2+ binding site [chemical binding]; other site 592205002209 Switch I region; other site 592205002210 G2 box; other site 592205002211 Switch II region; other site 592205002212 G3 box; other site 592205002213 G4 box; other site 592205002214 G5 box; other site 592205002215 KH domain; Region: KH_2; pfam07650 592205002216 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 592205002217 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 592205002218 Walker A motif; other site 592205002219 ATP binding site [chemical binding]; other site 592205002220 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 592205002221 Walker B motif; other site 592205002222 arginine finger; other site 592205002223 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 592205002224 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 592205002225 active site 592205002226 HslU subunit interaction site [polypeptide binding]; other site 592205002227 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 592205002228 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 592205002229 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 592205002230 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 592205002231 Probable transposase; Region: OrfB_IS605; pfam01385 592205002232 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 592205002233 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 592205002234 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 592205002235 DNA binding residues [nucleotide binding] 592205002236 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 592205002237 catalytic residues [active] 592205002238 catalytic nucleophile [active] 592205002239 YcfA-like protein; Region: YcfA; cl00752 592205002240 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 592205002241 glutamine synthetase, type I; Region: GlnA; TIGR00653 592205002242 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 592205002243 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 592205002244 dihydrodipicolinate reductase; Region: dapB; TIGR00036 592205002245 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 592205002246 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 592205002247 FAD binding domain; Region: FAD_binding_4; pfam01565 592205002248 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 592205002249 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 592205002250 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 592205002251 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 592205002252 dimer interface [polypeptide binding]; other site 592205002253 ADP-ribose binding site [chemical binding]; other site 592205002254 active site 592205002255 nudix motif; other site 592205002256 metal binding site [ion binding]; metal-binding site 592205002257 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 592205002258 Peptidase family M23; Region: Peptidase_M23; pfam01551 592205002259 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 592205002260 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 592205002261 Mg2+ binding site [ion binding]; other site 592205002262 G-X-G motif; other site 592205002263 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 592205002264 anchoring element; other site 592205002265 dimer interface [polypeptide binding]; other site 592205002266 ATP binding site [chemical binding]; other site 592205002267 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 592205002268 active site 592205002269 putative metal-binding site [ion binding]; other site 592205002270 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 592205002271 DNA polymerase III, beta subunit; Region: dnan; TIGR00663 592205002272 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 592205002273 putative DNA binding surface [nucleotide binding]; other site 592205002274 dimer interface [polypeptide binding]; other site 592205002275 beta-clamp/translesion DNA polymerase binding surface; other site 592205002276 beta-clamp/clamp loader binding surface; other site 592205002277 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 592205002278 Na2 binding site [ion binding]; other site 592205002279 putative substrate binding site 1 [chemical binding]; other site 592205002280 Na binding site 1 [ion binding]; other site 592205002281 putative substrate binding site 2 [chemical binding]; other site 592205002282 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 592205002283 Na2 binding site [ion binding]; other site 592205002284 putative substrate binding site 1 [chemical binding]; other site 592205002285 Na binding site 1 [ion binding]; other site 592205002286 putative substrate binding site 2 [chemical binding]; other site 592205002287 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 592205002288 active site 592205002289 Protein of unknown function (DUF493); Region: DUF493; pfam04359 592205002290 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 592205002291 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 592205002292 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 592205002293 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 592205002294 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 592205002295 Mg++ binding site [ion binding]; other site 592205002296 putative catalytic motif [active] 592205002297 putative substrate binding site [chemical binding]; other site 592205002298 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 592205002299 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 592205002300 Cation transport protein; Region: TrkH; cl17365 592205002301 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 592205002302 TrkA-N domain; Region: TrkA_N; pfam02254 592205002303 TrkA-C domain; Region: TrkA_C; pfam02080 592205002304 Holliday junction DNA helicase, RuvA subunit; Region: ruvA; TIGR00084 592205002305 RuvA N terminal domain; Region: RuvA_N; pfam01330 592205002306 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 592205002307 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 592205002308 MviN-like protein; Region: MVIN; pfam03023 592205002309 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 592205002310 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 592205002311 active site 592205002312 HIGH motif; other site 592205002313 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 592205002314 KMSKS motif; other site 592205002315 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 592205002316 tRNA binding surface [nucleotide binding]; other site 592205002317 anticodon binding site; other site 592205002318 Vacuolating cyotoxin; Region: VacA; pfam02691 592205002319 Autotransporter beta-domain; Region: Autotransporter; pfam03797 592205002320 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 592205002321 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 592205002322 Walker A/P-loop; other site 592205002323 ATP binding site [chemical binding]; other site 592205002324 Q-loop/lid; other site 592205002325 ABC transporter signature motif; other site 592205002326 Walker B; other site 592205002327 D-loop; other site 592205002328 H-loop/switch region; other site 592205002329 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 592205002330 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 592205002331 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 592205002332 ABC-ATPase subunit interface; other site 592205002333 dimer interface [polypeptide binding]; other site 592205002334 putative PBP binding regions; other site 592205002335 short chain dehydrogenase; Validated; Region: PRK06182 592205002336 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 592205002337 NADP binding site [chemical binding]; other site 592205002338 active site 592205002339 steroid binding site; other site 592205002340 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 592205002341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 592205002342 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205002343 potential protein location (Conserved hypothetical protein [Helicobacter pylori B38]) that overlaps RNA (tRNA-Q) 592205002344 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 592205002345 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 592205002346 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 592205002347 hydrogenase accessory protein HypB; Region: hypB; TIGR00073 592205002348 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 592205002349 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 592205002350 BioD-like N-terminal domain of phosphotransacetylase [General function prediction only]; Region: Pta; COG0857 592205002351 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 592205002352 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 592205002353 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK05842 592205002354 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 592205002355 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 592205002356 flagellar hook protein FlgE; Validated; Region: flgE; PRK05841 592205002357 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 592205002358 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 592205002359 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 592205002360 S-adenosylmethionine binding site [chemical binding]; other site 592205002361 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 592205002362 Part of AAA domain; Region: AAA_19; pfam13245 592205002363 Family description; Region: UvrD_C_2; pfam13538 592205002364 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205002365 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205002366 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 592205002367 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 592205002368 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 592205002369 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 592205002370 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 592205002371 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 592205002372 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 592205002373 ATP-grasp domain; Region: ATP-grasp_4; cl17255 592205002374 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 592205002375 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 592205002376 ATP-grasp domain; Region: ATP-grasp_4; cl17255 592205002377 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 592205002378 IMP binding site; other site 592205002379 dimer interface [polypeptide binding]; other site 592205002380 interdomain contacts; other site 592205002381 partial ornithine binding site; other site 592205002382 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 592205002383 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 592205002384 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 592205002385 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 592205002386 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 592205002387 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 592205002388 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 592205002389 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 592205002390 Putative vacuolating cytotoxin; Region: VacA2; pfam03077 592205002391 Autotransporter beta-domain; Region: Autotransporter; pfam03797 592205002392 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205002393 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 592205002394 active site 1 [active] 592205002395 dimer interface [polypeptide binding]; other site 592205002396 hexamer interface [polypeptide binding]; other site 592205002397 active site 2 [active] 592205002398 recombination protein RecR; Region: recR; TIGR00615 592205002399 RecR protein; Region: RecR; pfam02132 592205002400 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 592205002401 putative active site [active] 592205002402 putative metal-binding site [ion binding]; other site 592205002403 tetramer interface [polypeptide binding]; other site 592205002404 tRNA pseudouridine synthase, TruD family; Region: tRNA_TruD_broad; TIGR00094 592205002405 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 592205002406 Permutation of conserved domain; other site 592205002407 active site 592205002408 heat shock protein HtpX; Provisional; Region: PRK02870 592205002409 GTP cyclohydrolase I; Region: folE; TIGR00063 592205002410 GTP cyclohydrolase I; Provisional; Region: PLN03044 592205002411 active site 592205002412 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 592205002413 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 592205002414 substrate binding pocket [chemical binding]; other site 592205002415 chain length determination region; other site 592205002416 substrate-Mg2+ binding site; other site 592205002417 catalytic residues [active] 592205002418 aspartate-rich region 1; other site 592205002419 active site lid residues [active] 592205002420 aspartate-rich region 2; other site 592205002421 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 592205002422 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 592205002423 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 592205002424 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 592205002425 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 592205002426 Coenzyme A binding pocket [chemical binding]; other site 592205002427 Uncharacterized conserved protein [Function unknown]; Region: COG1479 592205002428 Protein of unknown function DUF262; Region: DUF262; pfam03235 592205002429 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 592205002430 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 592205002431 dimer interface [polypeptide binding]; other site 592205002432 conserved gate region; other site 592205002433 putative PBP binding loops; other site 592205002434 ABC-ATPase subunit interface; other site 592205002435 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 592205002436 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 592205002437 substrate binding pocket [chemical binding]; other site 592205002438 membrane-bound complex binding site; other site 592205002439 hinge residues; other site 592205002440 alanine racemase; Region: alr; TIGR00492 592205002441 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 592205002442 active site 592205002443 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 592205002444 dimer interface [polypeptide binding]; other site 592205002445 substrate binding site [chemical binding]; other site 592205002446 catalytic residues [active] 592205002447 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 592205002448 amino acid carrier protein; Region: agcS; TIGR00835 592205002449 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 592205002450 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 592205002451 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 592205002452 homotrimer interaction site [polypeptide binding]; other site 592205002453 putative active site [active] 592205002454 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 592205002455 TIGR01210 family protein; Region: TIGR01210 592205002456 Uncharacterized conserved protein [Function unknown]; Region: COG1576 592205002457 acetyl-CoA carboxylase, carboxyl transferase, beta subunit; Region: accD; TIGR00515 592205002458 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 592205002459 putative recombination protein RecO; Provisional; Region: PRK13908 592205002460 competence/damage-inducible protein CinA C-terminal domain; Region: cinA_cterm; TIGR00199 592205002461 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 592205002462 dimer interface [polypeptide binding]; other site 592205002463 FMN binding site [chemical binding]; other site 592205002464 prolipoprotein diacylglyceryl transferase; Region: lgt; TIGR00544 592205002465 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 592205002466 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 592205002467 active site 592205002468 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 592205002469 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 592205002470 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 592205002471 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 592205002472 Putative zinc ribbon domain; Region: DUF164; pfam02591 592205002473 dinuclear metal center protein, YbgI/SA1388 family; Region: YbgI_SA1388; TIGR00486 592205002474 Uncharacterized conserved protein [Function unknown]; Region: COG0327 592205002475 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 592205002476 dimer interface [polypeptide binding]; other site 592205002477 motif 1; other site 592205002478 active site 592205002479 motif 2; other site 592205002480 motif 3; other site 592205002481 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 592205002482 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 592205002483 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 592205002484 acyl carrier protein; Provisional; Region: acpP; PRK00982 592205002485 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 592205002486 Dynamin family; Region: Dynamin_N; pfam00350 592205002487 G1 box; other site 592205002488 GTP/Mg2+ binding site [chemical binding]; other site 592205002489 G2 box; other site 592205002490 Switch I region; other site 592205002491 G3 box; other site 592205002492 Switch II region; other site 592205002493 G4 box; other site 592205002494 G5 box; other site 592205002495 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 592205002496 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 592205002497 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 592205002498 Outer membrane efflux protein; Region: OEP; pfam02321 592205002499 Outer membrane efflux protein; Region: OEP; pfam02321 592205002500 glycyl-tRNA synthetase, tetrameric type, beta subunit; Region: glyS; TIGR00211 592205002501 phosphoglyceromutase; Provisional; Region: PRK05434 592205002502 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Region: pgm_bpd_ind; TIGR01307 592205002503 aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, C subunit; Region: gatC; TIGR00135 592205002504 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 592205002505 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 592205002506 inhibitor-cofactor binding pocket; inhibition site 592205002507 pyridoxal 5'-phosphate binding site [chemical binding]; other site 592205002508 catalytic residue [active] 592205002509 SurA N-terminal domain; Region: SurA_N_3; cl07813 592205002510 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 592205002511 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 592205002512 cell division protein FtsA; Region: ftsA; TIGR01174 592205002513 Cell division protein FtsA; Region: FtsA; smart00842 592205002514 Cell division protein FtsA; Region: FtsA; pfam14450 592205002515 cell division protein FtsZ; Validated; Region: PRK09330 592205002516 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 592205002517 nucleotide binding site [chemical binding]; other site 592205002518 SulA interaction site; other site 592205002519 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 592205002520 active site 592205002521 Exonuclease VII, large subunit [DNA replication, recombination, and repair]; Region: XseA; COG1570 592205002522 Mechanosensitive ion channel; Region: MS_channel; pfam00924 592205002523 Protein of unknown function (DUF3086); Region: DUF3086; pfam11285 592205002524 Haemagglutinin; Region: Hemagglutinin; pfam00509 592205002525 Part of AAA domain; Region: AAA_19; pfam13245 592205002526 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 592205002527 AAA domain; Region: AAA_30; pfam13604 592205002528 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 592205002529 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 592205002530 active site 592205002531 ATP binding site [chemical binding]; other site 592205002532 substrate binding site [chemical binding]; other site 592205002533 activation loop (A-loop); other site 592205002534 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 592205002535 metal ion-dependent adhesion site (MIDAS); other site 592205002536 Uncharacterized conserved protein [Function unknown]; Region: COG1479 592205002537 Protein of unknown function DUF262; Region: DUF262; pfam03235 592205002538 Protein of unknown function DUF262; Region: DUF262; pfam03235 592205002539 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 592205002540 Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]; Region: RecJ; COG0608 592205002541 DHH family; Region: DHH; pfam01368 592205002542 Arginine decarboxylase (spermidine biosynthesis) [Amino acid transport and metabolism]; Region: SpeA; COG1166 592205002543 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 592205002544 active site 592205002545 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 592205002546 catalytic residues [active] 592205002547 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 592205002548 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 592205002549 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 592205002550 putative ADP-binding pocket [chemical binding]; other site 592205002551 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 592205002552 active site 2 [active] 592205002553 active site 1 [active] 592205002554 Methyltransferase domain; Region: Methyltransf_23; pfam13489 592205002555 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 592205002556 S-adenosylmethionine binding site [chemical binding]; other site 592205002557 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 592205002558 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 592205002559 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 592205002560 active site 592205002561 HIGH motif; other site 592205002562 KMSKS motif; other site 592205002563 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 592205002564 anticodon binding site; other site 592205002565 tRNA binding surface [nucleotide binding]; other site 592205002566 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 592205002567 dimer interface [polypeptide binding]; other site 592205002568 putative tRNA-binding site [nucleotide binding]; other site 592205002569 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 592205002570 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 592205002571 S-adenosylmethionine binding site [chemical binding]; other site 592205002572 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 592205002573 Mechanosensitive ion channel; Region: MS_channel; pfam00924 592205002574 Neuraminyllactose-binding hemagglutinin precursor (NLBH); Region: NLBH; pfam05211 592205002575 GMP synthase; Reviewed; Region: guaA; PRK00074 592205002576 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 592205002577 AMP/PPi binding site [chemical binding]; other site 592205002578 candidate oxyanion hole; other site 592205002579 catalytic triad [active] 592205002580 potential glutamine specificity residues [chemical binding]; other site 592205002581 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 592205002582 ATP Binding subdomain [chemical binding]; other site 592205002583 Ligand Binding sites [chemical binding]; other site 592205002584 Dimerization subdomain; other site 592205002585 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 592205002586 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 592205002587 molybdopterin cofactor binding site [chemical binding]; other site 592205002588 substrate binding site [chemical binding]; other site 592205002589 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 592205002590 molybdopterin cofactor binding site; other site 592205002591 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 592205002592 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 592205002593 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 592205002594 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 592205002595 catalytic residue [active] 592205002596 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 592205002597 nucleotide binding site/active site [active] 592205002598 HIT family signature motif; other site 592205002599 catalytic residue [active] 592205002600 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 592205002601 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 592205002602 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 592205002603 dimer interface [polypeptide binding]; other site 592205002604 motif 1; other site 592205002605 active site 592205002606 motif 2; other site 592205002607 motif 3; other site 592205002608 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 592205002609 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 592205002610 putative tRNA-binding site [nucleotide binding]; other site 592205002611 tRNA synthetase B5 domain; Region: B5; pfam03484 592205002612 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 592205002613 dimer interface [polypeptide binding]; other site 592205002614 motif 1; other site 592205002615 motif 3; other site 592205002616 motif 2; other site 592205002617 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 592205002618 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 592205002619 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 592205002620 hinge; other site 592205002621 active site 592205002622 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 592205002623 LytB protein; Region: LYTB; pfam02401 592205002624 ribosomal protein S1; Region: rpsA; TIGR00717 592205002625 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 592205002626 RNA binding site [nucleotide binding]; other site 592205002627 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 592205002628 RNA binding site [nucleotide binding]; other site 592205002629 S1 RNA binding domain; Region: S1; pfam00575 592205002630 RNA binding site [nucleotide binding]; other site 592205002631 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 592205002632 RNA binding site [nucleotide binding]; other site 592205002633 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 592205002634 RNA binding site [nucleotide binding]; other site 592205002635 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 592205002636 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 592205002637 ligand binding site [chemical binding]; other site 592205002638 NAD binding site [chemical binding]; other site 592205002639 dimerization interface [polypeptide binding]; other site 592205002640 catalytic site [active] 592205002641 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 592205002642 putative L-serine binding site [chemical binding]; other site 592205002643 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 592205002644 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 592205002645 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 592205002646 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 592205002647 catalytic residue [active] 592205002648 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 592205002649 putative active site [active] 592205002650 putative metal binding site [ion binding]; other site 592205002651 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 592205002652 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 592205002653 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 592205002654 active site 592205002655 phosphorylation site [posttranslational modification] 592205002656 intermolecular recognition site; other site 592205002657 dimerization interface [polypeptide binding]; other site 592205002658 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 592205002659 putative binding surface; other site 592205002660 active site 592205002661 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 592205002662 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 592205002663 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 592205002664 ATP binding site [chemical binding]; other site 592205002665 Mg2+ binding site [ion binding]; other site 592205002666 G-X-G motif; other site 592205002667 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 592205002668 Response regulator receiver domain; Region: Response_reg; pfam00072 592205002669 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 592205002670 active site 592205002671 phosphorylation site [posttranslational modification] 592205002672 intermolecular recognition site; other site 592205002673 dimerization interface [polypeptide binding]; other site 592205002674 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 592205002675 putative CheA interaction surface; other site 592205002676 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 592205002677 dimer interface [polypeptide binding]; other site 592205002678 catalytic triad [active] 592205002679 peroxidatic and resolving cysteines [active] 592205002680 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 592205002681 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 592205002682 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 592205002683 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 592205002684 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 592205002685 S-adenosylmethionine binding site [chemical binding]; other site 592205002686 primosome assembly protein PriA; Validated; Region: PRK05580 592205002687 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 592205002688 ATP binding site [chemical binding]; other site 592205002689 putative Mg++ binding site [ion binding]; other site 592205002690 helicase superfamily c-terminal domain; Region: HELICc; smart00490 592205002691 Sporulation related domain; Region: SPOR; pfam05036 592205002692 Peptidase family M48; Region: Peptidase_M48; pfam01435 592205002693 HemK family putative methylases; Region: hemK_fam; TIGR00536 592205002694 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 592205002695 glutamate dehydrogenase; Provisional; Region: PRK09414 592205002696 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 592205002697 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 592205002698 NAD(P) binding site [chemical binding]; other site 592205002699 Glycosyltransferase family 10 (fucosyltransferase); Region: Glyco_transf_10; pfam00852 592205002700 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 592205002701 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 592205002702 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 592205002703 catalytic residues [active] 592205002704 ferrochelatase; Region: hemH; TIGR00109 592205002705 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 592205002706 C-terminal domain interface [polypeptide binding]; other site 592205002707 active site 592205002708 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 592205002709 active site 592205002710 N-terminal domain interface [polypeptide binding]; other site 592205002711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 592205002712 RNA methyltransferase, RsmE family; Region: TIGR00046 592205002713 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205002714 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 592205002715 trimer interface [polypeptide binding]; other site 592205002716 active site 592205002717 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 592205002718 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 592205002719 carboxyltransferase (CT) interaction site; other site 592205002720 biotinylation site [posttranslational modification]; other site 592205002721 biotin carboxylase; Validated; Region: PRK08462 592205002722 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 592205002723 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 592205002724 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 592205002725 Methyltransferase domain; Region: Methyltransf_26; pfam13659 592205002726 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 592205002727 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 592205002728 inhibitor-cofactor binding pocket; inhibition site 592205002729 pyridoxal 5'-phosphate binding site [chemical binding]; other site 592205002730 catalytic residue [active] 592205002731 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 592205002732 dimer interface [polypeptide binding]; other site 592205002733 putative radical transfer pathway; other site 592205002734 diiron center [ion binding]; other site 592205002735 tyrosyl radical; other site 592205002736 protein-L-isoaspartate(D-aspartate) O-methyltransferase; Region: pimt; TIGR00080 592205002737 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 592205002738 S-adenosylmethionine binding site [chemical binding]; other site 592205002739 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 592205002740 Predicted permeases [General function prediction only]; Region: COG0795 592205002741 tRNA pseudouridine(38-40) synthase; Region: hisT_truA; TIGR00071 592205002742 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 592205002743 dimerization interface 3.5A [polypeptide binding]; other site 592205002744 active site 592205002745 UDP-glucose-4-epimerase GalE; Region: galE; TIGR01179 592205002746 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 592205002747 NAD binding site [chemical binding]; other site 592205002748 homodimer interface [polypeptide binding]; other site 592205002749 active site 592205002750 substrate binding site [chemical binding]; other site 592205002751 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 592205002752 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 592205002753 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 592205002754 putative NAD(P) binding site [chemical binding]; other site 592205002755 homodimer interface [polypeptide binding]; other site 592205002756 homotetramer interface [polypeptide binding]; other site 592205002757 active site 592205002758 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 592205002759 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 592205002760 binding surface 592205002761 TPR motif; other site 592205002762 Sel1-like repeats; Region: SEL1; smart00671 592205002763 Sel1-like repeats; Region: SEL1; smart00671 592205002764 Sel1-like repeats; Region: SEL1; smart00671 592205002765 Entner-Doudoroff aldolase; Region: eda; TIGR01182 592205002766 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 592205002767 active site 592205002768 intersubunit interface [polypeptide binding]; other site 592205002769 catalytic residue [active] 592205002770 phosphogluconate dehydratase; Validated; Region: PRK09054 592205002771 6-phosphogluconate dehydratase; Region: edd; TIGR01196 592205002772 Glucose-6-phosphate 1-dehydrogenase [Carbohydrate transport and metabolism]; Region: Zwf; COG0364 592205002773 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 592205002774 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 592205002775 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 592205002776 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 592205002777 putative active site [active] 592205002778 glucokinase, proteobacterial type; Region: glk; TIGR00749 592205002779 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 592205002780 nucleotide binding site [chemical binding]; other site 592205002781 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 592205002782 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 592205002783 putative NAD(P) binding site [chemical binding]; other site 592205002784 putative substrate binding site [chemical binding]; other site 592205002785 catalytic Zn binding site [ion binding]; other site 592205002786 structural Zn binding site [ion binding]; other site 592205002787 dimer interface [polypeptide binding]; other site 592205002788 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 592205002789 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 592205002790 active site 592205002791 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205002792 pyruvate flavodoxin oxidoreductase subunit gamma; Validated; Region: PRK05844 592205002793 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 592205002794 pyruvate flavodoxin oxidoreductase subunit delta; Reviewed; Region: porD; PRK09625 592205002795 4Fe-4S binding domain; Region: Fer4; pfam00037 592205002796 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 592205002797 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 592205002798 dimer interface [polypeptide binding]; other site 592205002799 PYR/PP interface [polypeptide binding]; other site 592205002800 TPP binding site [chemical binding]; other site 592205002801 substrate binding site [chemical binding]; other site 592205002802 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 592205002803 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 592205002804 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 592205002805 TPP-binding site [chemical binding]; other site 592205002806 putative dimer interface [polypeptide binding]; other site 592205002807 adenylosuccinate lyase; Provisional; Region: PRK08470 592205002808 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 592205002809 tetramer interface [polypeptide binding]; other site 592205002810 active site 592205002811 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 592205002812 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205002813 excinuclease ABC subunit B; Provisional; Region: PRK05298 592205002814 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 592205002815 ATP binding site [chemical binding]; other site 592205002816 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 592205002817 putative Mg++ binding site [ion binding]; other site 592205002818 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 592205002819 nucleotide binding region [chemical binding]; other site 592205002820 ATP-binding site [chemical binding]; other site 592205002821 Ultra-violet resistance protein B; Region: UvrB; pfam12344 592205002822 UvrB/uvrC motif; Region: UVR; pfam02151 592205002823 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 592205002824 binding surface 592205002825 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 592205002826 TPR motif; other site 592205002827 Sel1-like repeats; Region: SEL1; smart00671 592205002828 Sel1-like repeats; Region: SEL1; smart00671 592205002829 Sel1-like repeats; Region: SEL1; smart00671 592205002830 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 592205002831 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 592205002832 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 592205002833 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 592205002834 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 592205002835 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 592205002836 cofactor binding site; other site 592205002837 DNA binding site [nucleotide binding] 592205002838 substrate interaction site [chemical binding]; other site 592205002839 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 592205002840 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 592205002841 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 592205002842 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 592205002843 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 592205002844 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 592205002845 ligand binding site [chemical binding]; other site 592205002846 translocation protein TolB; Provisional; Region: tolB; PRK04043 592205002847 TolB amino-terminal domain; Region: TolB_N; pfam04052 592205002848 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 592205002849 TonB C terminal; Region: TonB_2; pfam13103 592205002850 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 592205002851 TolR protein; Region: tolR; TIGR02801 592205002852 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 592205002853 ATP synthase, F1 epsilon subunit (delta in mitochondria); Region: ATP_synt_epsi; TIGR01216 592205002854 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 592205002855 gamma subunit interface [polypeptide binding]; other site 592205002856 epsilon subunit interface [polypeptide binding]; other site 592205002857 LBP interface [polypeptide binding]; other site 592205002858 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 592205002859 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 592205002860 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 592205002861 alpha subunit interaction interface [polypeptide binding]; other site 592205002862 Walker A motif; other site 592205002863 ATP binding site [chemical binding]; other site 592205002864 Walker B motif; other site 592205002865 inhibitor binding site; inhibition site 592205002866 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 592205002867 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 592205002868 core domain interface [polypeptide binding]; other site 592205002869 delta subunit interface [polypeptide binding]; other site 592205002870 epsilon subunit interface [polypeptide binding]; other site 592205002871 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 592205002872 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 592205002873 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 592205002874 beta subunit interaction interface [polypeptide binding]; other site 592205002875 Walker A motif; other site 592205002876 ATP binding site [chemical binding]; other site 592205002877 Walker B motif; other site 592205002878 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 592205002879 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13431 592205002880 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 592205002881 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 592205002882 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 592205002883 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 592205002884 ParB-like nuclease domain; Region: ParB; smart00470 592205002885 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 592205002886 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 592205002887 P-loop; other site 592205002888 Magnesium ion binding site [ion binding]; other site 592205002889 biotin--protein ligase; Provisional; Region: PRK08477 592205002890 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 592205002891 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 592205002892 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 592205002893 putative active site [active] 592205002894 substrate binding site [chemical binding]; other site 592205002895 putative cosubstrate binding site; other site 592205002896 catalytic site [active] 592205002897 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 592205002898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4694 592205002899 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 592205002900 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 592205002901 Uncharacterized conserved protein [Function unknown]; Region: COG1432 592205002902 LabA_like proteins; Region: LabA_like; cd06167 592205002903 putative metal binding site [ion binding]; other site 592205002904 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 592205002905 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 592205002906 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 592205002907 RimM N-terminal domain; Region: RimM; pfam01782 592205002908 PRC-barrel domain; Region: PRC; pfam05239 592205002909 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 592205002910 KH domain; Region: KH_4; pfam13083 592205002911 G-X-X-G motif; other site 592205002912 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 592205002913 signal recognition particle protein; Provisional; Region: PRK10867 592205002914 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 592205002915 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 592205002916 P loop; other site 592205002917 GTP binding site [chemical binding]; other site 592205002918 Signal peptide binding domain; Region: SRP_SPB; pfam02978 592205002919 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 592205002920 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 592205002921 active site 592205002922 HIGH motif; other site 592205002923 nucleotide binding site [chemical binding]; other site 592205002924 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 592205002925 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 592205002926 active site 592205002927 KMSKS motif; other site 592205002928 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 592205002929 anticodon binding site; other site 592205002930 flagellar assembly protein FliW; Provisional; Region: PRK13283 592205002931 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Region: murG; TIGR01133 592205002932 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 592205002933 active site 592205002934 homodimer interface [polypeptide binding]; other site 592205002935 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205002936 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205002937 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 592205002938 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 592205002939 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 592205002940 Fic/DOC family; Region: Fic; cl00960 592205002941 metal-binding heat shock protein; Provisional; Region: PRK00016 592205002942 flavodoxin FldA; Validated; Region: PRK09267 592205002943 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 592205002944 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 592205002945 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 592205002946 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 592205002947 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 592205002948 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 592205002949 Major Facilitator Superfamily; Region: MFS_1; pfam07690 592205002950 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 592205002951 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 592205002952 active site 592205002953 dimer interface [polypeptide binding]; other site 592205002954 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 592205002955 dimer interface [polypeptide binding]; other site 592205002956 active site 592205002957 Putative outer membrane protein; Region: HP_OMP_2; pfam02521 592205002958 carbon starvation protein A; Provisional; Region: PRK15015 592205002959 Carbon starvation protein CstA; Region: CstA; pfam02554 592205002960 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 592205002961 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 592205002962 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 592205002963 dimer interface [polypeptide binding]; other site 592205002964 conserved gate region; other site 592205002965 putative PBP binding loops; other site 592205002966 ABC-ATPase subunit interface; other site 592205002967 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 592205002968 dimer interface [polypeptide binding]; other site 592205002969 conserved gate region; other site 592205002970 putative PBP binding loops; other site 592205002971 ABC-ATPase subunit interface; other site 592205002972 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 592205002973 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 592205002974 Walker A/P-loop; other site 592205002975 ATP binding site [chemical binding]; other site 592205002976 Q-loop/lid; other site 592205002977 ABC transporter signature motif; other site 592205002978 Walker B; other site 592205002979 D-loop; other site 592205002980 H-loop/switch region; other site 592205002981 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 592205002982 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 592205002983 substrate binding pocket [chemical binding]; other site 592205002984 membrane-bound complex binding site; other site 592205002985 hinge residues; other site 592205002986 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 592205002987 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 592205002988 putative substrate translocation pore; other site 592205002989 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 592205002990 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205002991 purine-nucleoside phosphorylase, family 1 (deoD); Region: deoD; TIGR00107 592205002992 phosphopentomutase; Provisional; Region: PRK05362 592205002993 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 592205002994 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 592205002995 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 592205002996 Nucleoside recognition; Region: Gate; pfam07670 592205002997 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 592205002998 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 592205002999 Major Facilitator Superfamily; Region: MFS_1; pfam07690 592205003000 putative substrate translocation pore; other site 592205003001 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 592205003002 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 592205003003 Ligand Binding Site [chemical binding]; other site 592205003004 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 592205003005 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 592205003006 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 592205003007 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 592205003008 putative arabinose transporter; Provisional; Region: PRK03545 592205003009 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 592205003010 putative substrate translocation pore; other site 592205003011 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 592205003012 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 592205003013 active site 592205003014 zinc binding site [ion binding]; other site 592205003015 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 592205003016 aspartate-semialdehyde dehydrogenase (peptidoglycan organisms); Region: asd_B; TIGR01296 592205003017 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 592205003018 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 592205003019 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 592205003020 dimer interface [polypeptide binding]; other site 592205003021 motif 1; other site 592205003022 active site 592205003023 motif 2; other site 592205003024 motif 3; other site 592205003025 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 592205003026 anticodon binding site; other site 592205003027 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 592205003028 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 592205003029 putative active site [active] 592205003030 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 592205003031 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 592205003032 active site 592205003033 catalytic tetrad [active] 592205003034 elongation factor G; Reviewed; Region: PRK00007 592205003035 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 592205003036 G1 box; other site 592205003037 putative GEF interaction site [polypeptide binding]; other site 592205003038 GTP/Mg2+ binding site [chemical binding]; other site 592205003039 Switch I region; other site 592205003040 G2 box; other site 592205003041 G3 box; other site 592205003042 Switch II region; other site 592205003043 G4 box; other site 592205003044 G5 box; other site 592205003045 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 592205003046 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 592205003047 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 592205003048 30S ribosomal protein S7; Validated; Region: PRK05302 592205003049 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 592205003050 S17 interaction site [polypeptide binding]; other site 592205003051 S8 interaction site; other site 592205003052 16S rRNA interaction site [nucleotide binding]; other site 592205003053 streptomycin interaction site [chemical binding]; other site 592205003054 23S rRNA interaction site [nucleotide binding]; other site 592205003055 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 592205003056 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 592205003057 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 592205003058 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 592205003059 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 592205003060 RPB11 interaction site [polypeptide binding]; other site 592205003061 RPB12 interaction site [polypeptide binding]; other site 592205003062 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 592205003063 RPB3 interaction site [polypeptide binding]; other site 592205003064 RPB1 interaction site [polypeptide binding]; other site 592205003065 RPB11 interaction site [polypeptide binding]; other site 592205003066 RPB10 interaction site [polypeptide binding]; other site 592205003067 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 592205003068 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 592205003069 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 592205003070 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 592205003071 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 592205003072 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 592205003073 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 592205003074 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 592205003075 DNA binding site [nucleotide binding] 592205003076 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 592205003077 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 592205003078 core dimer interface [polypeptide binding]; other site 592205003079 peripheral dimer interface [polypeptide binding]; other site 592205003080 L10 interface [polypeptide binding]; other site 592205003081 L11 interface [polypeptide binding]; other site 592205003082 putative EF-Tu interaction site [polypeptide binding]; other site 592205003083 putative EF-G interaction site [polypeptide binding]; other site 592205003084 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 592205003085 23S rRNA interface [nucleotide binding]; other site 592205003086 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 592205003087 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 592205003088 mRNA/rRNA interface [nucleotide binding]; other site 592205003089 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 592205003090 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 592205003091 23S rRNA interface [nucleotide binding]; other site 592205003092 L7/L12 interface [polypeptide binding]; other site 592205003093 putative thiostrepton binding site; other site 592205003094 L25 interface [polypeptide binding]; other site 592205003095 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 592205003096 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 592205003097 putative homodimer interface [polypeptide binding]; other site 592205003098 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 592205003099 heterodimer interface [polypeptide binding]; other site 592205003100 homodimer interface [polypeptide binding]; other site 592205003101 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 592205003102 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 592205003103 elongation factor Tu; Reviewed; Region: PRK00049 592205003104 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 592205003105 G1 box; other site 592205003106 GEF interaction site [polypeptide binding]; other site 592205003107 GTP/Mg2+ binding site [chemical binding]; other site 592205003108 Switch I region; other site 592205003109 G2 box; other site 592205003110 G3 box; other site 592205003111 Switch II region; other site 592205003112 G4 box; other site 592205003113 G5 box; other site 592205003114 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 592205003115 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 592205003116 Antibiotic Binding Site [chemical binding]; other site 592205003117 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 592205003118 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 592205003119 Walker A/P-loop; other site 592205003120 ATP binding site [chemical binding]; other site 592205003121 Q-loop/lid; other site 592205003122 ABC transporter signature motif; other site 592205003123 Walker B; other site 592205003124 D-loop; other site 592205003125 H-loop/switch region; other site 592205003126 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 592205003127 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 592205003128 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; pfam02086 592205003129 serine O-acetyltransferase; Region: cysE; TIGR01172 592205003130 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 592205003131 trimer interface [polypeptide binding]; other site 592205003132 active site 592205003133 substrate binding site [chemical binding]; other site 592205003134 CoA binding site [chemical binding]; other site 592205003135 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 592205003136 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 592205003137 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 592205003138 oligomer interface [polypeptide binding]; other site 592205003139 RNA binding site [nucleotide binding]; other site 592205003140 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 592205003141 oligomer interface [polypeptide binding]; other site 592205003142 RNA binding site [nucleotide binding]; other site 592205003143 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 592205003144 putative nucleic acid binding region [nucleotide binding]; other site 592205003145 G-X-X-G motif; other site 592205003146 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 592205003147 RNA binding site [nucleotide binding]; other site 592205003148 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG1926 592205003149 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 592205003150 Organic solvent tolerance protein; Region: OstA_C; pfam04453 592205003151 Predicted membrane protein/domain [Function unknown]; Region: COG1714 592205003152 phosphoribosylamine--glycine ligase; Region: purD; TIGR00877 592205003153 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 592205003154 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 592205003155 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 592205003156 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 592205003157 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 592205003158 Walker A/P-loop; other site 592205003159 ATP binding site [chemical binding]; other site 592205003160 Q-loop/lid; other site 592205003161 ABC transporter signature motif; other site 592205003162 Walker B; other site 592205003163 D-loop; other site 592205003164 H-loop/switch region; other site 592205003165 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 592205003166 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 592205003167 catalytic residue [active] 592205003168 putative FPP diphosphate binding site; other site 592205003169 putative FPP binding hydrophobic cleft; other site 592205003170 dimer interface [polypeptide binding]; other site 592205003171 putative IPP diphosphate binding site; other site 592205003172 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 592205003173 FAD binding domain; Region: FAD_binding_4; pfam01565 592205003174 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 592205003175 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 592205003176 active site residue [active] 592205003177 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 592205003178 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 592205003179 active site 592205003180 camphor resistance protein CrcB; Provisional; Region: PRK14204 592205003181 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 592205003182 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 592205003183 FeS/SAM binding site; other site 592205003184 HemN C-terminal domain; Region: HemN_C; pfam06969 592205003185 Cytochrome c553 [Energy production and conversion]; Region: COG2863 592205003186 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 592205003187 putative active site [active] 592205003188 Ap4A binding site [chemical binding]; other site 592205003189 nudix motif; other site 592205003190 putative metal binding site [ion binding]; other site 592205003191 aspartate kinase; Reviewed; Region: PRK06635 592205003192 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 592205003193 putative nucleotide binding site [chemical binding]; other site 592205003194 putative catalytic residues [active] 592205003195 putative Mg ion binding site [ion binding]; other site 592205003196 putative aspartate binding site [chemical binding]; other site 592205003197 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 592205003198 putative allosteric regulatory site; other site 592205003199 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 592205003200 putative allosteric regulatory residue; other site 592205003201 DNA replication regulator; Region: HobA; pfam12163 592205003202 DNA polymerase III subunit delta'; Validated; Region: PRK08485 592205003203 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 592205003204 dihydropteroate synthase; Region: DHPS; TIGR01496 592205003205 substrate binding pocket [chemical binding]; other site 592205003206 dimer interface [polypeptide binding]; other site 592205003207 inhibitor binding site; inhibition site 592205003208 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 592205003209 EamA-like transporter family; Region: EamA; pfam00892 592205003210 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 592205003211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2952 592205003212 Carbamoylphosphate synthase small subunit [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarA; COG0505 592205003213 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 592205003214 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 592205003215 catalytic site [active] 592205003216 subunit interface [polypeptide binding]; other site 592205003217 formamidase; Provisional; Region: amiF; PRK13287 592205003218 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 592205003219 multimer interface [polypeptide binding]; other site 592205003220 active site 592205003221 catalytic triad [active] 592205003222 dimer interface [polypeptide binding]; other site 592205003223 Maf-like protein; Reviewed; Region: PRK04056 592205003224 putative active site [active] 592205003225 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 592205003226 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 592205003227 motif 1; other site 592205003228 active site 592205003229 motif 2; other site 592205003230 motif 3; other site 592205003231 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 592205003232 DHHA1 domain; Region: DHHA1; pfam02272 592205003233 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 592205003234 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 592205003235 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 592205003236 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 592205003237 dimer interface [polypeptide binding]; other site 592205003238 ssDNA binding site [nucleotide binding]; other site 592205003239 tetramer (dimer of dimers) interface [polypeptide binding]; other site 592205003240 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 592205003241 DNA polymerase III subunit delta; Validated; Region: PRK08487 592205003242 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 592205003243 Exoribonuclease R [Transcription]; Region: VacB; COG0557 592205003244 RNB domain; Region: RNB; pfam00773 592205003245 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 592205003246 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 592205003247 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 592205003248 shikimate binding site; other site 592205003249 NAD(P) binding site [chemical binding]; other site 592205003250 Bacterial SH3 domain; Region: SH3_3; pfam08239 592205003251 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 592205003252 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 592205003253 dimer interface [polypeptide binding]; other site 592205003254 conserved gate region; other site 592205003255 putative PBP binding loops; other site 592205003256 ABC-ATPase subunit interface; other site 592205003257 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 592205003258 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 592205003259 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 592205003260 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 592205003261 active site 592205003262 HIGH motif; other site 592205003263 dimer interface [polypeptide binding]; other site 592205003264 KMSKS motif; other site 592205003265 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 592205003266 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 592205003267 S-adenosylmethionine binding site [chemical binding]; other site 592205003268 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 592205003269 ribosome recycling factor; Reviewed; Region: frr; PRK00083 592205003270 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 592205003271 hinge region; other site 592205003272 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 592205003273 active site 592205003274 RDD family; Region: RDD; pfam06271 592205003275 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 592205003276 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 592205003277 NAD+ binding site [chemical binding]; other site 592205003278 substrate binding site [chemical binding]; other site 592205003279 Zn binding site [ion binding]; other site 592205003280 NADH dehydrogenase subunit A; Validated; Region: PRK08489 592205003281 NADH dehydrogenase subunit B; Validated; Region: PRK06411 592205003282 NADH dehydrogenase subunit C; Provisional; Region: PRK08491 592205003283 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 592205003284 NADH dehydrogenase subunit D; Validated; Region: PRK06075 592205003285 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 592205003286 NADH dehydrogenase subunit G; Validated; Region: PRK08493 592205003287 NADH dehydrogenase subunit G; Validated; Region: PRK08493 592205003288 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 592205003289 catalytic loop [active] 592205003290 iron binding site [ion binding]; other site 592205003291 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 592205003292 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 592205003293 molybdopterin cofactor binding site; other site 592205003294 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 592205003295 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 592205003296 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 592205003297 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 592205003298 4Fe-4S binding domain; Region: Fer4; cl02805 592205003299 4Fe-4S binding domain; Region: Fer4; pfam00037 592205003300 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 592205003301 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 592205003302 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 592205003303 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 592205003304 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 592205003305 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 592205003306 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 592205003307 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 592205003308 proton-translocating NADH-quinone oxidoreductase, chain N; Region: NDH_I_N; TIGR01770 592205003309 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 592205003310 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 592205003311 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 592205003312 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 592205003313 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 592205003314 active site 592205003315 substrate binding site [chemical binding]; other site 592205003316 metal binding site [ion binding]; metal-binding site 592205003317 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 592205003318 substrate binding site [chemical binding]; other site 592205003319 active site 592205003320 catalytic residues [active] 592205003321 heterodimer interface [polypeptide binding]; other site 592205003322 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 592205003323 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 592205003324 pyridoxal 5'-phosphate binding site [chemical binding]; other site 592205003325 catalytic residue [active] 592205003326 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 592205003327 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 592205003328 active site 592205003329 ribulose/triose binding site [chemical binding]; other site 592205003330 phosphate binding site [ion binding]; other site 592205003331 substrate (anthranilate) binding pocket [chemical binding]; other site 592205003332 product (indole) binding pocket [chemical binding]; other site 592205003333 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 592205003334 active site 592205003335 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 592205003336 anthranilate phosphoribosyltransferase; Region: trpD; TIGR01245 592205003337 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 592205003338 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 592205003339 Glutamine amidotransferase class-I; Region: GATase; pfam00117 592205003340 glutamine binding [chemical binding]; other site 592205003341 catalytic triad [active] 592205003342 anthranilate synthase component I, proteobacterial subset; Region: trpE_proteo; TIGR00565 592205003343 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 592205003344 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 592205003345 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 592205003346 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 592205003347 putative active site [active] 592205003348 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 592205003349 active site 592205003350 motif I; other site 592205003351 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 592205003352 motif II; other site 592205003353 Uncharacterized conserved protein [Function unknown]; Region: COG2353 592205003354 thiaminase II; Region: salvage_TenA; TIGR04306 592205003355 Nicotinamide mononucleotide transporter [Coenzyme metabolism]; Region: PnuC; COG3201 592205003356 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 592205003357 Thiamine pyrophosphokinase; Region: TPK; cd07995 592205003358 active site 592205003359 dimerization interface [polypeptide binding]; other site 592205003360 thiamine binding site [chemical binding]; other site 592205003361 Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]; Region: RplQ; COG0203 592205003362 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 592205003363 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 592205003364 alphaNTD homodimer interface [polypeptide binding]; other site 592205003365 alphaNTD - beta interaction site [polypeptide binding]; other site 592205003366 alphaNTD - beta' interaction site [polypeptide binding]; other site 592205003367 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 592205003368 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 592205003369 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 592205003370 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 592205003371 RNA binding surface [nucleotide binding]; other site 592205003372 30S ribosomal protein S11; Validated; Region: PRK05309 592205003373 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 592205003374 30S ribosomal protein S13; Region: bact_S13; TIGR03631 592205003375 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 592205003376 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 592205003377 rRNA binding site [nucleotide binding]; other site 592205003378 predicted 30S ribosome binding site; other site 592205003379 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 592205003380 active site 592205003381 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 592205003382 SecY translocase; Region: SecY; pfam00344 592205003383 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 592205003384 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 592205003385 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 592205003386 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 592205003387 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 592205003388 23S rRNA interface [nucleotide binding]; other site 592205003389 5S rRNA interface [nucleotide binding]; other site 592205003390 L27 interface [polypeptide binding]; other site 592205003391 L5 interface [polypeptide binding]; other site 592205003392 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 592205003393 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 592205003394 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 592205003395 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 592205003396 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 592205003397 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 592205003398 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 592205003399 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 592205003400 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 592205003401 RNA binding site [nucleotide binding]; other site 592205003402 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 592205003403 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 592205003404 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 592205003405 putative translocon interaction site; other site 592205003406 23S rRNA interface [nucleotide binding]; other site 592205003407 signal recognition particle (SRP54) interaction site; other site 592205003408 L23 interface [polypeptide binding]; other site 592205003409 trigger factor interaction site; other site 592205003410 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 592205003411 23S rRNA interface [nucleotide binding]; other site 592205003412 5S rRNA interface [nucleotide binding]; other site 592205003413 putative antibiotic binding site [chemical binding]; other site 592205003414 L25 interface [polypeptide binding]; other site 592205003415 L27 interface [polypeptide binding]; other site 592205003416 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 592205003417 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 592205003418 G-X-X-G motif; other site 592205003419 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 592205003420 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 592205003421 putative translocon binding site; other site 592205003422 protein-rRNA interface [nucleotide binding]; other site 592205003423 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 592205003424 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 592205003425 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 592205003426 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 592205003427 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 592205003428 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 592205003429 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 592205003430 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 592205003431 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 592205003432 AAA domain; Region: AAA_14; pfam13173 592205003433 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 592205003434 RNA/DNA hybrid binding site [nucleotide binding]; other site 592205003435 active site 592205003436 fumarate hydratase; Reviewed; Region: fumC; PRK00485 592205003437 Class II fumarases; Region: Fumarase_classII; cd01362 592205003438 active site 592205003439 tetramer interface [polypeptide binding]; other site 592205003440 YtkA-like; Region: YtkA; pfam13115 592205003441 Outer membrane efflux protein; Region: OEP; pfam02321 592205003442 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 592205003443 HlyD family secretion protein; Region: HlyD_3; pfam13437 592205003444 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 592205003445 Predicted branched-chain amino acid permeases (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlD; COG1687 592205003446 4-azaleucine resistance probable transporter AzlC; Region: azlC; TIGR00346 592205003447 chaperone protein DnaJ; Provisional; Region: PRK14288 592205003448 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 592205003449 HSP70 interaction site [polypeptide binding]; other site 592205003450 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 592205003451 substrate binding site [polypeptide binding]; other site 592205003452 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 592205003453 Zn binding sites [ion binding]; other site 592205003454 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 592205003455 dimer interface [polypeptide binding]; other site 592205003456 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 592205003457 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 592205003458 Ligand Binding Site [chemical binding]; other site 592205003459 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 592205003460 HSP70 interaction site [polypeptide binding]; other site 592205003461 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 592205003462 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 592205003463 active site 592205003464 (T/H)XGH motif; other site 592205003465 nickel responsive regulator; Provisional; Region: PRK00630 592205003466 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 592205003467 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 592205003468 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 592205003469 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 592205003470 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 592205003471 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 592205003472 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 592205003473 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205003474 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 592205003475 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 592205003476 Mg2+ transporter Helicobacter pylori CorA-like subgroup; Region: HpCorA-like; cd12836 592205003477 Cl binding site [ion binding]; other site 592205003478 oligomer interface [polypeptide binding]; other site 592205003479 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 592205003480 Phosphoglycerate kinase; Region: PGK; pfam00162 592205003481 substrate binding site [chemical binding]; other site 592205003482 hinge regions; other site 592205003483 ADP binding site [chemical binding]; other site 592205003484 catalytic site [active] 592205003485 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 592205003486 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 592205003487 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 592205003488 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 592205003489 ligand binding site [chemical binding]; other site 592205003490 active site 592205003491 UGI interface [polypeptide binding]; other site 592205003492 catalytic site [active] 592205003493 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 592205003494 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 592205003495 putative acyl-acceptor binding pocket; other site 592205003496 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 592205003497 C-terminal peptidase (prc); Region: prc; TIGR00225 592205003498 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 592205003499 protein binding site [polypeptide binding]; other site 592205003500 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 592205003501 Catalytic dyad [active] 592205003502 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 592205003503 YcfA-like protein; Region: YcfA; cl00752 592205003504 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 592205003505 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 592205003506 DNA binding residues [nucleotide binding] 592205003507 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 592205003508 catalytic residues [active] 592205003509 catalytic nucleophile [active] 592205003510 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 592205003511 Probable transposase; Region: OrfB_IS605; pfam01385 592205003512 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 592205003513 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 592205003514 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 592205003515 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 592205003516 DNA methylase; Region: N6_N4_Mtase; pfam01555 592205003517 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05848 592205003518 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 592205003519 dimerization interface [polypeptide binding]; other site 592205003520 active site 592205003521 quinolinate synthetase complex, A subunit; Region: nadA; TIGR00550 592205003522 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 592205003523 prenyltransferase; Reviewed; Region: ubiA; PRK12874 592205003524 UbiA prenyltransferase family; Region: UbiA; pfam01040 592205003525 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 592205003526 Competence protein; Region: Competence; pfam03772 592205003527 replicative DNA helicase; Provisional; Region: PRK08506 592205003528 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 592205003529 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 592205003530 Walker A motif; other site 592205003531 ATP binding site [chemical binding]; other site 592205003532 Walker B motif; other site 592205003533 DNA binding loops [nucleotide binding] 592205003534 yjeF N-terminal region; Region: yjeF_nterm; TIGR00197 592205003535 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 592205003536 putative substrate binding site [chemical binding]; other site 592205003537 putative ATP binding site [chemical binding]; other site 592205003538 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 592205003539 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 592205003540 dimer interface [polypeptide binding]; other site 592205003541 phosphorylation site [posttranslational modification] 592205003542 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 592205003543 ATP binding site [chemical binding]; other site 592205003544 Mg2+ binding site [ion binding]; other site 592205003545 G-X-G motif; other site 592205003546 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 592205003547 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 592205003548 active site 592205003549 phosphorylation site [posttranslational modification] 592205003550 intermolecular recognition site; other site 592205003551 dimerization interface [polypeptide binding]; other site 592205003552 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 592205003553 DNA binding site [nucleotide binding] 592205003554 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 592205003555 DEAD-like helicases superfamily; Region: DEXDc; smart00487 592205003556 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 592205003557 rod shape-determining protein MreC; Region: MreC; pfam04085 592205003558 rod shape-determining protein MreB; Provisional; Region: PRK13927 592205003559 MreB and similar proteins; Region: MreB_like; cd10225 592205003560 nucleotide binding site [chemical binding]; other site 592205003561 Mg binding site [ion binding]; other site 592205003562 putative protofilament interaction site [polypeptide binding]; other site 592205003563 RodZ interaction site [polypeptide binding]; other site 592205003564 endopeptidase Clp ATP-binding regulatory subunit (clpX); Region: clpX; TIGR00382 592205003565 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 592205003566 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 592205003567 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 592205003568 Walker A motif; other site 592205003569 ATP binding site [chemical binding]; other site 592205003570 Walker B motif; other site 592205003571 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 592205003572 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 592205003573 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 592205003574 active site 592205003575 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 592205003576 flagellar assembly protein FliW; Provisional; Region: PRK13282 592205003577 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 592205003578 ATP-dependent protease La; Region: lon; TIGR00763 592205003579 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 592205003580 Walker A motif; other site 592205003581 ATP binding site [chemical binding]; other site 592205003582 Walker B motif; other site 592205003583 arginine finger; other site 592205003584 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 592205003585 prephenate dehydrogenase; Validated; Region: PRK08507 592205003586 Prephenate dehydrogenase; Region: PDH; pfam02153 592205003587 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 592205003588 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 592205003589 active site 592205003590 substrate binding site [chemical binding]; other site 592205003591 Mg2+ binding site [ion binding]; other site 592205003592 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 592205003593 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 592205003594 DNA methylase; Region: N6_N4_Mtase; pfam01555 592205003595 DNA methylase; Region: N6_N4_Mtase; pfam01555 592205003596 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 592205003597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 592205003598 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 592205003599 biotin synthase; Provisional; Region: PRK08508 592205003600 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 592205003601 FeS/SAM binding site; other site 592205003602 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 592205003603 YihY family inner membrane protein; Region: yihY_not_rbn; TIGR00765 592205003604 7-cyano-7-deazaguanine reductase; Region: QueF-II; TIGR03139 592205003605 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 592205003606 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 592205003607 IPP transferase; Region: IPPT; pfam01715 592205003608 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 592205003609 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 592205003610 Ligand binding site; other site 592205003611 metal-binding site 592205003612 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 592205003613 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 592205003614 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 592205003615 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 592205003616 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 592205003617 Walker A motif/ATP binding site; other site 592205003618 Walker B motif; other site 592205003619 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 592205003620 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 592205003621 ATP binding site [chemical binding]; other site 592205003622 Walker A motif; other site 592205003623 hexamer interface [polypeptide binding]; other site 592205003624 Walker B motif; other site 592205003625 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 592205003626 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 592205003627 active site 592205003628 HIGH motif; other site 592205003629 nucleotide binding site [chemical binding]; other site 592205003630 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 592205003631 active site 592205003632 KMSKS motif; other site 592205003633 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 592205003634 tRNA binding surface [nucleotide binding]; other site 592205003635 anticodon binding site; other site 592205003636 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 592205003637 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 592205003638 RNA binding surface [nucleotide binding]; other site 592205003639 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 592205003640 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 592205003641 FeS/SAM binding site; other site 592205003642 KpsF/GutQ family protein; Region: kpsF; TIGR00393 592205003643 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 592205003644 putative active site [active] 592205003645 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 592205003646 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 592205003647 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 592205003648 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 592205003649 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 592205003650 dimethyladenosine transferase; Region: ksgA; TIGR00755 592205003651 S-adenosylmethionine binding site [chemical binding]; other site 592205003652 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 592205003653 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 592205003654 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 592205003655 formyltetrahydrofolate deformylase; Region: PurU; TIGR00655 592205003656 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 592205003657 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 592205003658 active site 592205003659 substrate binding site [chemical binding]; other site 592205003660 cosubstrate binding site; other site 592205003661 catalytic site [active] 592205003662 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 592205003663 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 592205003664 tandem repeat interface [polypeptide binding]; other site 592205003665 oligomer interface [polypeptide binding]; other site 592205003666 active site residues [active] 592205003667 TIR domain; Region: TIR_2; pfam13676 592205003668 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 592205003669 active site 592205003670 carbon storage regulator; Provisional; Region: PRK00568 592205003671 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 592205003672 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 592205003673 SmpB-tmRNA interface; other site 592205003674 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 592205003675 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 592205003676 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 592205003677 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 592205003678 ribonuclease P protein component, eubacterial; Region: rnpA; TIGR00188 592205003679 hypothetical protein; Provisional; Region: PRK14374 592205003680 membrane protein insertase; Provisional; Region: PRK01318 592205003681 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 592205003682 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 592205003683 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 592205003684 tRNA modification GTPase TrmE; Region: mnmE_trmE_thdF; TIGR00450 592205003685 trmE is a tRNA modification GTPase; Region: trmE; cd04164 592205003686 G1 box; other site 592205003687 GTP/Mg2+ binding site [chemical binding]; other site 592205003688 Switch I region; other site 592205003689 G2 box; other site 592205003690 Switch II region; other site 592205003691 G3 box; other site 592205003692 G4 box; other site 592205003693 G5 box; other site 592205003694 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 592205003695 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205003696 LPP20 lipoprotein; Region: LPP20; pfam02169 592205003697 Collagen-binding surface adhesin SpaP (antigen I/II family) [General function prediction only]; Region: FlgN; COG3417 592205003698 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 592205003699 catalytic residues [active] 592205003700 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 592205003701 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 592205003702 RNA binding surface [nucleotide binding]; other site 592205003703 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 592205003704 active site 592205003705 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 592205003706 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 592205003707 active site 592205003708 PHP Thumb interface [polypeptide binding]; other site 592205003709 metal binding site [ion binding]; metal-binding site 592205003710 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 592205003711 generic binding surface I; other site 592205003712 generic binding surface II; other site 592205003713 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 592205003714 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 592205003715 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 592205003716 mce related protein; Region: MCE; pfam02470 592205003717 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 592205003718 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 592205003719 Walker A/P-loop; other site 592205003720 ATP binding site [chemical binding]; other site 592205003721 Q-loop/lid; other site 592205003722 ABC transporter signature motif; other site 592205003723 Walker B; other site 592205003724 D-loop; other site 592205003725 H-loop/switch region; other site 592205003726 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 592205003727 conserved hypothetical integral membrane protein; Region: TIGR00056 592205003728 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205003729 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 592205003730 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 592205003731 homodimer interface [polypeptide binding]; other site 592205003732 substrate-cofactor binding pocket; other site 592205003733 catalytic residue [active] 592205003734 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205003735 DNA polymerase I; Region: pola; TIGR00593 592205003736 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 592205003737 active site 592205003738 metal binding site 1 [ion binding]; metal-binding site 592205003739 putative 5' ssDNA interaction site; other site 592205003740 metal binding site 3; metal-binding site 592205003741 metal binding site 2 [ion binding]; metal-binding site 592205003742 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 592205003743 putative DNA binding site [nucleotide binding]; other site 592205003744 putative metal binding site [ion binding]; other site 592205003745 3'-5' exonuclease; Region: 35EXOc; smart00474 592205003746 active site 592205003747 substrate binding site [chemical binding]; other site 592205003748 catalytic site [active] 592205003749 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 592205003750 active site 592205003751 DNA binding site [nucleotide binding] 592205003752 catalytic site [active] 592205003753 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 592205003754 thymidylate kinase; Validated; Region: tmk; PRK00698 592205003755 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 592205003756 TMP-binding site; other site 592205003757 ATP-binding site [chemical binding]; other site 592205003758 Phosphopantetheine adenylyltransferase [Coenzyme metabolism]; Region: CoaD; COG0669 592205003759 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 592205003760 active site 592205003761 (T/H)XGH motif; other site 592205003762 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 592205003763 Flavoprotein; Region: Flavoprotein; pfam02441 592205003764 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 592205003765 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 592205003766 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 592205003767 Part of AAA domain; Region: AAA_19; pfam13245 592205003768 Family description; Region: UvrD_C_2; pfam13538 592205003769 TPR repeat; Region: TPR_11; pfam13414 592205003770 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 592205003771 TPR motif; other site 592205003772 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 592205003773 binding surface 592205003774 TPR motif; other site 592205003775 seryl-tRNA synthetase; Provisional; Region: PRK05431 592205003776 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 592205003777 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 592205003778 dimer interface [polypeptide binding]; other site 592205003779 active site 592205003780 motif 1; other site 592205003781 motif 2; other site 592205003782 motif 3; other site 592205003783 Predicted amidohydrolase [General function prediction only]; Region: COG0388 592205003784 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 592205003785 active site 592205003786 catalytic triad [active] 592205003787 dimer interface [polypeptide binding]; other site 592205003788 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK14065 592205003789 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 592205003790 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 592205003791 S-adenosylmethionine binding site [chemical binding]; other site 592205003792 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 592205003793 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 592205003794 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 592205003795 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 592205003796 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 592205003797 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 592205003798 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 592205003799 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 592205003800 HlyD family secretion protein; Region: HlyD_3; pfam13437 592205003801 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 592205003802 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 592205003803 Domain of unknown function DUF21; Region: DUF21; pfam01595 592205003804 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 592205003805 Transporter associated domain; Region: CorC_HlyC; smart01091 592205003806 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 592205003807 Phosphate transporter family; Region: PHO4; pfam01384 592205003808 NifU-like domain; Region: NifU; pfam01106 592205003809 UDP-N-acetylmuramyl-tripeptide synthetase; Region: murE; TIGR01085 592205003810 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 592205003811 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 592205003812 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 592205003813 putative active site [active] 592205003814 transaldolase; Provisional; Region: PRK03903 592205003815 catalytic residue [active] 592205003816 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 592205003817 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 592205003818 5S rRNA interface [nucleotide binding]; other site 592205003819 CTC domain interface [polypeptide binding]; other site 592205003820 L16 interface [polypeptide binding]; other site 592205003821 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 592205003822 putative active site [active] 592205003823 catalytic residue [active] 592205003824 Predicted permeases [General function prediction only]; Region: COG0795 592205003825 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 592205003826 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 592205003827 PLD-like domain; Region: PLDc_2; pfam13091 592205003828 homodimer interface [polypeptide binding]; other site 592205003829 putative active site [active] 592205003830 catalytic site [active] 592205003831 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205003832 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 592205003833 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 592205003834 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 592205003835 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 592205003836 metal-binding site [ion binding] 592205003837 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 592205003838 Soluble P-type ATPase [General function prediction only]; Region: COG4087 592205003839 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 592205003840 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 592205003841 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 592205003842 catalytic motif [active] 592205003843 Zn binding site [ion binding]; other site 592205003844 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 592205003845 RibD C-terminal domain; Region: RibD_C; cl17279 592205003846 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 592205003847 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 592205003848 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 592205003849 NAD(P) binding pocket [chemical binding]; other site 592205003850 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 592205003851 4Fe-4S binding domain; Region: Fer4_5; pfam12801 592205003852 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 592205003853 acyl-phosphate glycerol 3-phosphate acyltransferase; Region: TIGR00023 592205003854 FolB domain; Region: folB_dom; TIGR00526 592205003855 active site 592205003856 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 592205003857 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 592205003858 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 592205003859 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 592205003860 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 592205003861 NusA N-terminal domain; Region: NusA_N; pfam08529 592205003862 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 592205003863 RNA binding site [nucleotide binding]; other site 592205003864 homodimer interface [polypeptide binding]; other site 592205003865 NusA-like KH domain; Region: KH_5; pfam13184 592205003866 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 592205003867 G-X-X-G motif; other site 592205003868 Protein of unknown function (DUF4065); Region: DUF4065; pfam13274 592205003869 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 592205003870 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 592205003871 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 592205003872 Restriction endonuclease [Defense mechanisms]; Region: COG3587 592205003873 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 592205003874 ATP binding site [chemical binding]; other site 592205003875 putative Mg++ binding site [ion binding]; other site 592205003876 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 592205003877 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 592205003878 ssDNA binding site; other site 592205003879 generic binding surface II; other site 592205003880 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 592205003881 ATP binding site [chemical binding]; other site 592205003882 putative Mg++ binding site [ion binding]; other site 592205003883 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 592205003884 nucleotide binding region [chemical binding]; other site 592205003885 ATP-binding site [chemical binding]; other site 592205003886 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205003887 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 592205003888 active site 592205003889 putative catalytic site [active] 592205003890 DNA binding site [nucleotide binding] 592205003891 putative phosphate binding site [ion binding]; other site 592205003892 metal binding site A [ion binding]; metal-binding site 592205003893 AP binding site [nucleotide binding]; other site 592205003894 metal binding site B [ion binding]; metal-binding site 592205003895 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 592205003896 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 592205003897 Walker A motif; other site 592205003898 ATP binding site [chemical binding]; other site 592205003899 Walker B motif; other site 592205003900 arginine finger; other site 592205003901 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 592205003902 DnaA box-binding interface [nucleotide binding]; other site 592205003903 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 592205003904 Protein of unknown function (DUF2443); Region: DUF2443; pfam10398 592205003905 glucosamine--fructose-6-phosphate aminotransferase (isomerizing); Region: glmS; TIGR01135 592205003906 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 592205003907 glutaminase active site [active] 592205003908 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 592205003909 dimer interface [polypeptide binding]; other site 592205003910 active site 592205003911 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 592205003912 dimer interface [polypeptide binding]; other site 592205003913 active site 592205003914 Predicted alternative thymidylate synthase [Nucleotide transport and metabolism]; Region: THY1; COG1351 592205003915 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 592205003916 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 592205003917 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 592205003918 HsdM N-terminal domain; Region: HsdM_N; pfam12161 592205003919 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 592205003920 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 592205003921 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 592205003922 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 592205003923 ATP binding site [chemical binding]; other site 592205003924 putative Mg++ binding site [ion binding]; other site 592205003925 Protein of unknown function DUF45; Region: DUF45; pfam01863 592205003926 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 592205003927 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 592205003928 N-terminal plug; other site 592205003929 ligand-binding site [chemical binding]; other site 592205003930 Arginase family; Region: Arginase; cd09989 592205003931 active site 592205003932 Mn binding site [ion binding]; other site 592205003933 oligomer interface [polypeptide binding]; other site 592205003934 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 592205003935 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 592205003936 hexamer interface [polypeptide binding]; other site 592205003937 ligand binding site [chemical binding]; other site 592205003938 putative active site [active] 592205003939 NAD(P) binding site [chemical binding]; other site 592205003940 Uncharacterized conserved protein [Function unknown]; Region: COG1479 592205003941 Protein of unknown function DUF262; Region: DUF262; pfam03235 592205003942 Uncharacterized conserved protein [Function unknown]; Region: COG1479 592205003943 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 592205003944 Helicobacter outer membrane protein; Region: HP_OMP; pfam01856 592205003945 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 592205003946 ATP-NAD kinase; Region: NAD_kinase; pfam01513 592205003947 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 592205003948 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 592205003949 Walker A/P-loop; other site 592205003950 ATP binding site [chemical binding]; other site 592205003951 Q-loop/lid; other site 592205003952 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 592205003953 ABC transporter signature motif; other site 592205003954 Walker B; other site 592205003955 D-loop; other site 592205003956 H-loop/switch region; other site 592205003957 Domain of unknown function (DUF814); Region: DUF814; pfam05670 592205003958 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 592205003959 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 592205003960 active site 592205003961 DNA binding site [nucleotide binding] 592205003962 Int/Topo IB signature motif; other site 592205003963 Helix-turn-helix domain; Region: HTH_36; pfam13730 592205003964 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 592205003965 Probable transposase; Region: OrfB_IS605; pfam01385 592205003966 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 592205003967 Predicted site-specific integrase-resolvase [DNA replication, recombination, and repair]; Region: COG2452 592205003968 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 592205003969 DNA binding residues [nucleotide binding] 592205003970 Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of...; Region: SR_IS607_transposase_like; cd03769 592205003971 catalytic residues [active] 592205003972 catalytic nucleophile [active] 592205003973 YcfA-like protein; Region: YcfA; cl00752 592205003974 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 592205003975 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 592205003976 Sel1-like repeats; Region: SEL1; smart00671 592205003977 Sel1-like repeats; Region: SEL1; smart00671 592205003978 Sel1-like repeats; Region: SEL1; smart00671 592205003979 Sel1-like repeats; Region: SEL1; smart00671 592205003980 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 592205003981 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 592205003982 active site 592205003983 catalytic site [active] 592205003984 substrate binding site [chemical binding]; other site 592205003985 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 592205003986 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 592205003987 substrate binding site [chemical binding]; other site 592205003988 hexamer interface [polypeptide binding]; other site 592205003989 metal binding site [ion binding]; metal-binding site 592205003990 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 592205003991 active site 592205003992 Methyltransferase domain; Region: Methyltransf_26; pfam13659 592205003993 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 592205003994 Cytochrome c; Region: Cytochrom_C; pfam00034 592205003995 Cytochrome c; Region: Cytochrom_C; cl11414 592205003996 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 592205003997 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 592205003998 intrachain domain interface; other site 592205003999 interchain domain interface [polypeptide binding]; other site 592205004000 heme bH binding site [chemical binding]; other site 592205004001 Qi binding site; other site 592205004002 heme bL binding site [chemical binding]; other site 592205004003 Qo binding site; other site 592205004004 interchain domain interface [polypeptide binding]; other site 592205004005 intrachain domain interface; other site 592205004006 Qi binding site; other site 592205004007 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 592205004008 Qo binding site; other site 592205004009 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 592205004010 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 592205004011 [2Fe-2S] cluster binding site [ion binding]; other site 592205004012 transcription-repair coupling factor (mfd); Region: mfd; TIGR00580 592205004013 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 592205004014 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 592205004015 ATP binding site [chemical binding]; other site 592205004016 putative Mg++ binding site [ion binding]; other site 592205004017 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 592205004018 nucleotide binding region [chemical binding]; other site 592205004019 ATP-binding site [chemical binding]; other site 592205004020 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 592205004021 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 592205004022 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 592205004023 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 592205004024 Peptidase family M23; Region: Peptidase_M23; pfam01551 592205004025 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 592205004026 Peptidase family M23; Region: Peptidase_M23; pfam01551 592205004027 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 592205004028 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 592205004029 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 592205004030 Lipopolysaccharide-assembly; Region: LptE; pfam04390 592205004031 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 592205004032 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 592205004033 HIGH motif; other site 592205004034 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 592205004035 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 592205004036 active site 592205004037 KMSKS motif; other site 592205004038 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 592205004039 tRNA binding surface [nucleotide binding]; other site 592205004040 anticodon binding site; other site 592205004041 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 592205004042 Protein export membrane protein; Region: SecD_SecF; pfam02355 592205004043 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 592205004044 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 592205004045 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 592205004046 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14856 592205004047 putative recombination protein RecB; Provisional; Region: PRK13909 592205004048 Family description; Region: UvrD_C_2; pfam13538 592205004049 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 592205004050 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 592205004051 rRNA interaction site [nucleotide binding]; other site 592205004052 S8 interaction site; other site 592205004053 putative laminin-1 binding site; other site 592205004054 elongation factor Ts; Provisional; Region: tsf; PRK09377 592205004055 UBA/TS-N domain; Region: UBA; pfam00627 592205004056 Elongation factor TS; Region: EF_TS; pfam00889 592205004057 Elongation factor TS; Region: EF_TS; pfam00889 592205004058 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 592205004059 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 592205004060 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 592205004061 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 592205004062 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 592205004063 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 592205004064 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 592205004065 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 592205004066 Cell cycle protein; Region: FTSW_RODA_SPOVE; pfam01098 592205004067 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 592205004068 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 592205004069 putative ligand binding site [chemical binding]; other site 592205004070 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 592205004071 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 592205004072 dimer interface [polypeptide binding]; other site 592205004073 decamer (pentamer of dimers) interface [polypeptide binding]; other site 592205004074 catalytic triad [active] 592205004075 peroxidatic and resolving cysteines [active] 592205004076 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 592205004077 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 592205004078 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 592205004079 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 592205004080 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 592205004081 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 592205004082 G1 box; other site 592205004083 GTP/Mg2+ binding site [chemical binding]; other site 592205004084 Switch I region; other site 592205004085 G2 box; other site 592205004086 G3 box; other site 592205004087 Switch II region; other site 592205004088 G4 box; other site 592205004089 G5 box; other site 592205004090 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 592205004091 OstA-like protein; Region: OstA; pfam03968 592205004092 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 592205004093 motif II; other site 592205004094 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 592205004095 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 592205004096 Sporulation related domain; Region: SPOR; pfam05036 592205004097 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 592205004098 N-acetyl-D-glucosamine binding site [chemical binding]; other site 592205004099 catalytic residue [active] 592205004100 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 592205004101 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 592205004102 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 592205004103 active site 592205004104 riboflavin synthase, alpha subunit; Region: ribE; TIGR00187 592205004105 Lumazine binding domain; Region: Lum_binding; pfam00677 592205004106 Lumazine binding domain; Region: Lum_binding; pfam00677 592205004107 flhB C-terminus-related protein; Region: flhB_rel; TIGR00789 592205004108 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 592205004109 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 592205004110 Walker A/P-loop; other site 592205004111 ATP binding site [chemical binding]; other site 592205004112 Q-loop/lid; other site 592205004113 ABC transporter signature motif; other site 592205004114 Walker B; other site 592205004115 D-loop; other site 592205004116 H-loop/switch region; other site 592205004117 NIL domain; Region: NIL; pfam09383 592205004118 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 592205004119 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 592205004120 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 592205004121 active site 592205004122 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 592205004123 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 592205004124 active site 592205004125 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 592205004126 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 592205004127 Mg++ binding site [ion binding]; other site 592205004128 putative catalytic motif [active] 592205004129 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 592205004130 active site 592205004131 hydrophilic channel; other site 592205004132 dimerization interface [polypeptide binding]; other site 592205004133 catalytic residues [active] 592205004134 active site lid [active] 592205004135 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 592205004136 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK03946 592205004137 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 592205004138 metallohydrolase, glycoprotease/Kae1 family; Region: gcp_kae1; TIGR00329 592205004139 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 592205004140 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 592205004141 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 592205004142 Predicted membrane protein [Function unknown]; Region: COG4640 592205004143 hypothetical protein; Provisional; Region: PRK10236 592205004144 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 592205004145 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 592205004146 hypothetical protein; Provisional; Region: PRK10236 592205004147 Domain of unknown function (DUF3944); Region: DUF3944; pfam13099 592205004148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735