From AureoWiki
Jump to navigation Jump to search

NCBI: 06-JUL-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_0961 [new locus tag: NWMN_RS05390 ]
  • pan locus tag?: SAUPAN003319000
  • symbol: pdhC
  • pan gene symbol?: pdhC
  • synonym:
  • product: branched-chain alpha-keto acid dehydrogenase subunit E2

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: NWMN_0961 [new locus tag: NWMN_RS05390 ]
  • symbol: pdhC
  • product: branched-chain alpha-keto acid dehydrogenase subunit E2
  • replicon: chromosome
  • strand: +
  • coordinates: 1067301..1068593
  • length: 1293
  • essential: unknown other strains

⊟Accession numbers[edit | edit source]

⊟Phenotype[edit | edit source]

Share your knowledge and add information here. [edit]

⊟DNA sequence[edit | edit source]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    721
    781
    841
    901
    961
    1021
    1081
    1141
    1201
    1261
    GTGGCATTTGAATTTAGATTACCCGATATCGGGGAAGGTATCCACGAAGGTGAAATTGTA
    AAATGGTTTGTTAAAGCTGGAGATACTATTGAAGAAGACGATGTTTTAGCTGAGGTACAA
    AACGATAAATCAGTAGTAGAAATCCCATCACCAGTATCTGGTACTGTAGAAGAAGTTATG
    GTAGAAGAAGGTACAGTAGCTGTAGTTGGTGACGTTATTGTTAAAATCGATGCACCTGAT
    GCAGAAGATATGCAATTTAAAGGTCATGATGATGATTCATCATCTAAAGAAGAACCTGCG
    AAAGAGGAAGCGCCAGCAGAGCAAGCACCTGTAGCTACTCAAACTGAAGAAGTAGATGAA
    AACAGAACTGTTAAAGCAATGCCTTCAGTACGTAAATACGCACGTGAAAAAGGTGTTAAC
    ATTAAAGCAGTTTCTGGATCTGGTAAAAATGGTCGTATTACAAAAGAAGATGTAGATGCA
    TACTTAAATGGTGGTGCACCAACAGCTTCAAATGAATCAGCTGCTTCAGCTACAAGTGAA
    GAAGTTGCTGAAACTCCTGCAGCACCTGCAGCAGTAACATTAGAAGGCGACTTCCCAGAA
    ACAACTGAAAAAATCCCTGCTATGCGTAGAGCAATTGCGAAAGCAATGGTTAACTCTAAG
    CATACTGCACCTCATGTAACATTAATGGATGAAATTGATGTTCAAGCATTATGGGATCAC
    CGTAAGAAATTTAAAGAAATCGCAGCTGAACAAGGTACTAAGTTAACATTCTTACCTTAT
    GTTGTTAAAGCACTTGTTTCTGCATTGAAAAAATACCCAGCACTTAACACTTCATTCAAT
    GAAGAAGCTGGTGAAATCGTTCATAAACATTACTGGAATATCGGTATTGCAGCAGACACT
    GATAGAGGATTATTAGTACCTGTTGTTAAACATGCTGATCGTAAGTCTATTTTCCAAATT
    TCAGATGAAATTAATGAATTAGCTGTTAAAGCACGTGATGGTAAATTAACAGCCGATGAA
    ATGAAAGGTGCTACATGCACAATCAGTAATATCGGTTCAGCTGGTGGACAATGGTTCACT
    CCAGTTATCAATCACCCAGAAGTAGCAATCTTAGGAATTGGCCGTATTGCTCAAAAACCT
    ATCGTTAAAGATGGAGAAATTGTTGCAGCACCAGTATTAGCATTATCATTAAGCTTTGAC
    CACAGACAAATTGATGGTGCAACTGGCCAAAATGCAATGAATCACATTAAACGTTTATTA
    AATAATCCAGAATTATTATTAATGGAGGGGTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1293

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: NWMN_0961 [new locus tag: NWMN_RS05390 ]
  • symbol: PdhC
  • description: branched-chain alpha-keto acid dehydrogenase subunit E2
  • length: 430
  • theoretical pI: 4.63498
  • theoretical MW: 46382
  • GRAVY: -0.292093

⊟Function[edit | edit source]

  • reaction:
    EC 2.3.1.-?  ExPASy
  • ⊞TIGRFAM:
    Metabolism Energy metabolism Pyruvate dehydrogenase dihydrolipoyllysine-residue acetyltransferase (TIGR01348; EC 2.3.1.12; HMM-score: 359)
    Metabolism Energy metabolism TCA cycle dihydrolipoyllysine-residue succinyltransferase, E2 component of oxoglutarate dehydrogenase (succinyl-transferring) complex (TIGR01347; EC 2.3.1.61; HMM-score: 310.9)
    2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase (TIGR02927; EC 2.3.1.61; HMM-score: 296.2)
    and 12 more
    Metabolism Energy metabolism Pyruvate dehydrogenase pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase (TIGR01349; EC 2.3.1.12; HMM-score: 274.9)
    Metabolism Transport and binding proteins Other efflux pump membrane protein (TIGR00998; HMM-score: 22.3)
    Metabolism Transport and binding proteins Cations and iron carrying compounds oxaloacetate decarboxylase alpha subunit (TIGR01108; EC 4.1.1.3; HMM-score: 18.4)
    Metabolism Energy metabolism Other oxaloacetate decarboxylase alpha subunit (TIGR01108; EC 4.1.1.3; HMM-score: 18.4)
    Metabolism Fatty acid and phospholipid metabolism Biosynthesis acetyl-CoA carboxylase, biotin carboxyl carrier protein (TIGR00531; HMM-score: 17.3)
    Metabolism Central intermediary metabolism Nitrogen metabolism urea carboxylase (TIGR02712; EC 6.3.4.6; HMM-score: 17.3)
    Metabolism Transport and binding proteins Unknown substrate efflux transporter, RND family, MFP subunit (TIGR01730; HMM-score: 16.5)
    Metabolism Energy metabolism Amino acids and amines glycine cleavage system H protein (TIGR00527; HMM-score: 15.7)
    Metabolism Energy metabolism Glycolysis/gluconeogenesis pyruvate carboxylase (TIGR01235; EC 6.4.1.1; HMM-score: 15.5)
    glycine cleavage protein H-like protein (TIGR03077; HMM-score: 14.9)
    Cellular processes Cellular processes Biosynthesis of natural products NHLM bacteriocin system secretion protein (TIGR03794; HMM-score: 12.2)
    Metabolism Transport and binding proteins Amino acids, peptides and amines NHLM bacteriocin system secretion protein (TIGR03794; HMM-score: 12.2)
  • ⊞TheSEED  :
    • Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12)
    Carbohydrates Central carbohydrate metabolism Dehydrogenase complexes  Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12)
    and 2 more
    Carbohydrates Central carbohydrate metabolism Pyruvate metabolism II: acetyl-CoA, acetogenesis from pyruvate  Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12)
    Cofactors, Vitamins, Prosthetic Groups, Pigments Lipoic acid Lipoic acid metabolism  Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12)
  • ⊞PFAM:
    CoA-acyltrans (CL0149) 2-oxoacid_dh; 2-oxoacid dehydrogenases acyltransferase (catalytic domain) (PF00198; HMM-score: 313.3)
    and 12 more
    Hybrid (CL0105) Biotin_lipoyl; Biotin-requiring enzyme (PF00364; HMM-score: 84.2)
    no clan defined E3_binding; e3 binding domain (PF02817; HMM-score: 63)
    Hybrid (CL0105) Biotin_lipoyl_2; Biotin-lipoyl like (PF13533; HMM-score: 43.5)
    GCV_H; Glycine cleavage H-protein (PF01597; HMM-score: 19.4)
    ATP-synt_ab_Xtn; ATPsynthase alpha/beta subunit barrel-sandwich domain (PF16886; HMM-score: 17.9)
    NQRA_N; NqrA N-terminal barrel-sandwich hybrid domain (PF05896; HMM-score: 15.3)
    RnfC_N; RnfC Barrel sandwich hybrid domain (PF13375; HMM-score: 15.3)
    HlyD_D23; Barrel-sandwich domain of CusB or HlyD membrane-fusion (PF16576; HMM-score: 14.1)
    no clan defined TMP_3; Tape measure protein (PF20155; HMM-score: 13.6)
    DUF896; Bacterial protein of unknown function (DUF896) (PF05979; HMM-score: 13)
    TIM_barrel (CL0036) DUF2090; Uncharacterized protein conserved in bacteria (DUF2090) (PF09863; HMM-score: 11.8)
    Hybrid (CL0105) HlyD_3; HlyD family secretion protein (PF13437; HMM-score: 11.5)

⊟Structure, modifications & cofactors[edit | edit source]

  • domains:
  • modifications:
  • cofactors: (R)-lipoate
  • effectors:

⊟Localization[edit | edit source]

  • ⊞PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.97
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 0.01
    • Extracellular Score: 0.02
    • Internal Helices: 0
  • ⊞DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9941
    • Cytoplasmic Membrane Score: 0.0041
    • Cell wall & surface Score: 0
    • Extracellular Score: 0.0018
  • ⊞LocateP: Intracellular
    • Prediction by SwissProt Classification: Cytoplasmic
    • Pathway Prediction: No pathway
    • Intracellular possibility: 1
    • Signal peptide possibility: -1
    • N-terminally Anchored Score: 1
    • Predicted Cleavage Site: No CleavageSite
  • ⊞SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.002784
    • TAT(Tat/SPI): 0.000262
    • LIPO(Sec/SPII): 0.000333
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MAFEFRLPDIGEGIHEGEIVKWFVKAGDTIEEDDVLAEVQNDKSVVEIPSPVSGTVEEVMVEEGTVAVVGDVIVKIDAPDAEDMQFKGHDDDSSSKEEPAKEEAPAEQAPVATQTEEVDENRTVKAMPSVRKYAREKGVNIKAVSGSGKNGRITKEDVDAYLNGGAPTASNESAASATSEEVAETPAAPAAVTLEGDFPETTEKIPAMRRAIAKAMVNSKHTAPHVTLMDEIDVQALWDHRKKFKEIAAEQGTKLTFLPYVVKALVSALKKYPALNTSFNEEAGEIVHKHYWNIGIAADTDRGLLVPVVKHADRKSIFQISDEINELAVKARDGKLTADEMKGATCTISNIGSAGGQWFTPVINHPEVAILGIGRIAQKPIVKDGEIVAAPVLALSLSFDHRQIDGATGQNAMNHIKRLLNNPELLLMEG

⊟Experimental data[edit | edit source]

  • experimentally validated: data available for COL, NCTC8325
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell: data available for COL
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator:

⊟Transcription pattern[edit | edit source]

⊟Protein synthesis (provided by Aureolib)[edit | edit source]

⊟Protein stability[edit | edit source]

  • half-life: no data available

⊞Biological Material[edit | edit source]

⊟Mutants[edit | edit source]

⊟Expression vector[edit | edit source]

⊟lacZ fusion[edit | edit source]

⊟GFP fusion[edit | edit source]

⊟two-hybrid system[edit | edit source]

⊟FLAG-tag construct[edit | edit source]

⊟Antibody[edit | edit source]

⊞Other Information[edit | edit source]

You are kindly invited to share additional interesting facts.

⊟Literature[edit | edit source]

⊟References[edit | edit source]

⊟Relevant publications[edit | edit source]

Retrieved from "http://fungenwikiserver.biologie.uni-greifswald.de/aureowiki/index.php?title=NWMN_0961&oldid=59825"