From AureoWiki
Jump to navigation Jump to search

NCBI: 10-JUN-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL2428 [new locus tag: SACOL_RS12740 ]
  • pan locus tag?: SAUPAN005967000
  • symbol: bioD
  • pan gene symbol?: bioD
  • synonym:
  • product: dethiobiotin synthase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SACOL2428 [new locus tag: SACOL_RS12740 ]
  • symbol: bioD
  • product: dethiobiotin synthase
  • replicon: chromosome
  • strand: -
  • coordinates: 2486658..2487344
  • length: 687
  • 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
    ATGAGGATTTTTATTACAAGTACGAATACTGATGTAGGCAAAACCTATGTTACAAAGCAT
    TTATACCATGCTTTGAAAACACGTGGTCATCGAGTTTGTATTTTTAAACCATTTCAAACT
    GAGGAACGCCAAGACGGGACGTTTCCAGATTTAGAAGTATTTAAAAATGAATGTGATTTA
    AGCTATGACATAACGTCACTTTATACTTTTAAGCAACCTGTATCACCACACCTTGCATTT
    AAAATGACAGATCAAATTTTTCTAAATAAGCAGCGTGTATTAGATAAGGTAAAAGTTTTA
    GATAAGGAATTTGATTTTATCTTAATTGAGGGTGCTGGGGGAATTGCCGTACCAATATAT
    GAAGGTACAGATGATTTCTACATGACTAAAGATCTAATCAATGATTGTGCAGATTGTGTC
    ATCAGTGTGTTGCCATCAAAATTAGGTGCTATTAGCGATGCCATTGTTCACCAAGATTAT
    GTTAATCAGAATGTATCGGCGAGTAATTTTTTAATAATGAATCGCTATACAGACAGCTAT
    ATTGAAAAAGACAATCAAATGACGATTGGAAAATTAACAAATAAAACAGTCTATACATTT
    GAAGAACATGCCACGTATGAAAATTTCTCAGAAGCATTTTTAAAACAATTAATAGGAGTT
    AAAAATGAATTACACACAACAACTTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    687

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SACOL2428 [new locus tag: SACOL_RS12740 ]
  • symbol: BioD
  • description: dethiobiotin synthase
  • length: 228
  • theoretical pI: 5.59134
  • theoretical MW: 26158.6
  • GRAVY: -0.272368

⊟Function[edit | edit source]

  • reaction:
    EC 6.3.3.3?  ExPASy
    Dethiobiotin synthase ATP + 7,8-diaminononanoate + CO2 = ADP + phosphate + dethiobiotin
  • TIGRFAM:
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Biotin dethiobiotin synthase (TIGR00347; EC 6.3.3.3; HMM-score: 103.8)
    and 5 more
    Cellular processes Cellular processes Cell division septum site-determining protein MinD (TIGR01968; HMM-score: 31.6)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Heme, porphyrin, and cobalamin cobyric acid synthase CobQ (TIGR00313; EC 6.3.5.10; HMM-score: 20.6)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Molybdopterin molybdopterin-guanine dinucleotide biosynthesis protein B (TIGR00176; HMM-score: 13.7)
    cell division ATPase MinD (TIGR01969; HMM-score: 12.5)
    Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides cellulose synthase operon protein YhjQ (TIGR03371; HMM-score: 11.8)
  • TheSEED  :
    • Dethiobiotin synthetase (EC 6.3.3.3)
    Cofactors, Vitamins, Prosthetic Groups, Pigments Biotin Biotin biosynthesis  Dethiobiotin synthetase (EC 6.3.3.3)
  • PFAM:
    P-loop_NTPase (CL0023) AAA_26; AAA domain (PF13500; HMM-score: 86.6)
    and 4 more
    CbiA; CobQ/CobB/MinD/ParA nucleotide binding domain (PF01656; HMM-score: 24.5)
    DUF1611; Domain of unknown function (DUF1611_C) P-loop domain (PF07755; HMM-score: 21.2)
    MobB; Molybdopterin guanine dinucleotide synthesis protein B (PF03205; HMM-score: 17)
    cobW; CobW/HypB/UreG, nucleotide-binding domain (PF02492; HMM-score: 14.5)

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

  • domains:
  • modifications:
  • cofactors: Mg2+
  • 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
  • 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): 0.00819
    • TAT(Tat/SPI): 0.000251
    • LIPO(Sec/SPII): 0.001262
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MRIFITSTNTDVGKTYVTKHLYHALKTRGHRVCIFKPFQTEERQDGTFPDLEVFKNECDLSYDITSLYTFKQPVSPHLAFKMTDQIFLNKQRVLDKVKVLDKEFDFILIEGAGGIAVPIYEGTDDFYMTKDLINDCADCVISVLPSKLGAISDAIVHQDYVNQNVSASNFLIMNRYTDSYIEKDNQMTIGKLTNKTVYTFEEHATYENFSEAFLKQLIGVKNELHTTT

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas
  • protein localization: Cytoplasmic [1] [2] [3]
  • quantitative data / protein copy number per cell:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator: BirA (repression) regulon
    BirA(TF)important in Biotin biosynthesis; RegPrecise 

⊟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]

  1. ↑ Dörte Becher, Kristina Hempel, Susanne Sievers, Daniela Zühlke, Jan Pané-Farré, Andreas Otto, Stephan Fuchs, Dirk Albrecht, Jörg Bernhardt, Susanne Engelmann, Uwe Völker, Jan Maarten van Dijl, Michael Hecker
    A proteomic view of an important human pathogen--towards the quantification of the entire Staphylococcus aureus proteome.
    PLoS One: 2009, 4(12);e8176
    [PubMed:19997597] [WorldCat.org] [DOI] (I e)
  2. ↑ Kristina Hempel, Jan Pané-Farré, Andreas Otto, Susanne Sievers, Michael Hecker, Dörte Becher
    Quantitative cell surface proteome profiling for SigB-dependent protein expression in the human pathogen Staphylococcus aureus via biotinylation approach.
    J Proteome Res: 2010, 9(3);1579-90
    [PubMed:20108986] [WorldCat.org] [DOI] (I p)
  3. ↑ Kristina Hempel, Florian-Alexander Herbst, Martin Moche, Michael Hecker, Dörte Becher
    Quantitative proteomic view on secreted, cell surface-associated, and cytoplasmic proteins of the methicillin-resistant human pathogen Staphylococcus aureus under iron-limited conditions.
    J Proteome Res: 2011, 10(4);1657-66
    [PubMed:21323324] [WorldCat.org] [DOI] (I p)

⊟Relevant publications[edit | edit source]

Retrieved from "http://aureowiki.med.uni-greifswald.de/index.php?title=SACOL2428&oldid=80411"