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FunGene: 08-OCT-2024

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus JSNZ
  • locus tag: JSNZ_000210
  • pan locus tag?: SAUPAN001155000
  • symbol: rbsD
  • pan gene symbol?: rbsD
  • synonym:
  • product: D-ribose pyranase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: JSNZ_000210
  • symbol: rbsD
  • product: D-ribose pyranase
  • replicon: chromosome
  • strand: -
  • coordinates: 250719..251123
  • length: 405
  • essential: unknown other strains

⊟Accession numbers[edit | edit source]

  • Gene ID:
  • RefSeq:
  • BioCyc:
  • MicrobesOnline:

⊟Phenotype[edit | edit source]

Share your knowledge and add information here. [edit]

⊟DNA sequence[edit | edit source]

  • 1
    61
    121
    181
    241
    301
    361
    ATGAAAAAATCAGCTGTTTTAAATGAACATATTTCAAAAGCAATCGCGACAATTGGTCAT
    TTTGATTTATTAACGATTAATGACGCTGGCATGCCAATTCCAAATGATCATCGTCGTATC
    GACCTAGCTGTAACTAAAAACTTACCACGCTTTATTGATGTCTTAGCTACAGTGTTAGAA
    GAAATGGAAATCCAAAAAATATACTTAGCAGAAGAAATAAAAGAACATAACCCTACACAA
    TTGCAACAAATTAAACAATTGATTTCATCGGAAATCGAAATCATTTTCATTCCTCACGAA
    GAAATGAAAAGTAACTTAGCTCACCCATTAAATAAAGGTAATATTCGTACTGGTGAAACA
    ACGCCCTACTCTAATATTGCATTAGAATCGAATGTTACTTTTTAA
    60
    120
    180
    240
    300
    360
    405

⊟Protein[edit | edit source]

Protein Data Bank: 3P12
Protein Data Bank: 3P13

⊟General[edit | edit source]

  • locus tag: JSNZ_000210
  • symbol: RbsD
  • description: D-ribose pyranase
  • length: 134
  • theoretical pI: 5.9179
  • theoretical MW: 15165.4
  • GRAVY: -0.214179

⊟Function[edit | edit source]

  • reaction:
    EC 5.4.99.62?  ExPASy
    D-ribose pyranase Beta-D-ribopyranose = beta-D-ribofuranose
  • TIGRFAM:
  • TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
  • PFAM:
    PELOTA (CL0101) RbsD_FucU; RbsD / FucU transport protein family (PF05025; HMM-score: 134.6)
    and 1 more
    no clan defined Myb_Cef; pre-mRNA splicing factor component (PF11831; HMM-score: 15.5)

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

  • domains:
  • modifications:
  • cofactors:
  • 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: 0.9982
    • Cytoplasmic Membrane Score: 0.0003
    • Cell wall & surface Score: 0.0001
    • Extracellular Score: 0.0014
  • LocateP:
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.003241
    • TAT(Tat/SPI): 0.000164
    • LIPO(Sec/SPII): 0.000854
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq:
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MKKSAVLNEHISKAIATIGHFDLLTINDAGMPIPNDHRRIDLAVTKNLPRFIDVLATVLEEMEIQKIYLAEEIKEHNPTQLQQIKQLISSEIEIIFIPHEEMKSNLAHPLNKGNIRTGETTPYSNIALESNVTF

⊟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:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulators: RbsR* (repression) regulon, CcpA regulon
    RbsR*(TF)important in Ribose utilization;  regulation predicted or transferred from N315 and NCTC 8325  [2]
    CcpA(TF)important in Carbon catabolism;  regulation predicted or transferred from N315 and NCTC 8325  [2]

⊟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 can add further information about the gene and protein here. [edit]

⊟Literature[edit | edit source]

⊟References[edit | edit source]

  1. ↑ Blanca Taboada, Karel Estrada, Ricardo Ciria, Enrique Merino
    Operon-mapper: a web server for precise operon identification in bacterial and archaeal genomes.
    Bioinformatics: 2018, 34(23);4118-4120
    [PubMed:29931111] [WorldCat.org] [DOI] (I p)
  2. ↑ 2.0 2.1 Hannes Wolfgramm, Larissa Milena Busch, Jöran Tebben, Henry Mehlan, Lisa Hagenau, Thomas Sura, Tilly Hoffmüller, Elisa Bludau, Manuela Gesell Salazar, Alexander Reder, Stephan Michalik, Leif Steil, Kristin Surmann, Ulrike Mäder, Silva Holtfreter, Uwe Völker
    Integrated genomic and proteomic analysis of the mouse-adapted Staphylococcus aureus strain JSNZ.
    Curr Res Microb Sci: 2025, 9;100489
    [PubMed:41146725] [WorldCat.org] [DOI] (I e)

⊟Relevant publications[edit | edit source]

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