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NCBI: 03-AUG-2016

Summary[edit source | edit]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_00239
  • pan locus tag?: SAUPAN001154000
  • symbol: SAOUHSC_00239
  • pan gene symbol?: rbsK
  • synonym:
  • product: ribokinase

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: SAOUHSC_00239
  • symbol: SAOUHSC_00239
  • product: ribokinase
  • replicon: chromosome
  • strand: -
  • coordinates: 259908..260822
  • length: 915
  • essential: no DEG other strains

Accession numbers[edit source | edit]

Phenotype[edit source | edit]

  • Share your knowledge and add information here. [edit]

DNA sequence[edit source | edit]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    721
    781
    841
    901
    ATGACCAACAAAGTTGTTATTTTAGGTTCAACGAATGTCGATCAATTTTTAACAGTTGAA
    AGATATGCACAACCAGGCGAAACATTACATGTTGAAGAAGCACAAAAAGCATTCGGCGGA
    GGTAAAGGTGCCAACCAGGCTATTGCCACTGCACGCATGCAAGCAGACACAACATTTATT
    ACTAAAATTGGCACTGATGGCGTTGCTGATTTCATCTTAGAAGATTTTAAAGTAGCTCAT
    ATTGATACATCATATATTATCAAAACAGCTGAAGCAAAAACGGGCCAAGCCTTTATCACT
    GTGAATGCAGAAGGACAAAACACCATCTATGTTTATGGTGGTGCGAATATGACGATGACA
    CCTGAAGATGTTATTAACGCAAAAGACGCTATAATCAATGCAGACTTTGTCGTTGCACAA
    TTAGAAGTACCCATCCCGGCTATTATATCTGCATTTGAAATTGCCAAGGCACATGGTGTG
    ACGACAGTATTAAATCCTGCACCAGCGAAAGCATTACCTAATGAATTATTATCATTAATC
    GATATTATTGTGCCAAACGAAACAGAAGCCGAATTGTTATCTGGGATTAAAGTAACTAAT
    GAACAATCTATGAAAGACAATGCCAATTACTTTTTATCTATAGGCATTAAGACTGTTTTG
    ATTACGCTAGGTAAGCAAGGTACATATTTTGCTACTAAAAATCAAAGCCAACACATCGAA
    GCTTATAAAGTAAATGCGATTGATACAACTGCTGCAGGCGACACATTTATTGGTGCATTT
    GTCAGTCGCTTAAACAAGTCGCAAGATAACTTAGCAGATGCTATTGATTTTGGTAATAAA
    GCGAGCTCACTCACTGTACAAAAACACGGCGCGCAAGCATCTATTCCTCTACTAGAAGAA
    GTAAATCAAGTTTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    915

Protein[edit source | edit]

Protein Data Bank: 3RY7

General[edit source | edit]

  • locus tag: SAOUHSC_00239
  • symbol: SAOUHSC_00239
  • description: ribokinase
  • length: 304
  • theoretical pI: 4.6011
  • theoretical MW: 32448.5
  • GRAVY: 0.0286184

Function[edit source | edit]

  • reaction:
    EC 2.7.1.15?  ExPASy
    RibokinaseATP + D-ribose = ADP + D-ribose 5-phosphate
  • TIGRFAM:
    MetabolismEnergy metabolismSugarsribokinase (TIGR02152; EC 2.7.1.15; HMM-score: 379.2)
    MetabolismEnergy metabolismSugars5-dehydro-2-deoxygluconokinase (TIGR04382; EC 2.7.1.92; HMM-score: 114.7)
    hexose kinase, 1-phosphofructokinase family (TIGR03168; EC 2.7.1.-; HMM-score: 91.2)
    1-phosphofructokinase (TIGR03828; EC 2.7.1.56; HMM-score: 83.3)
    Cell structureCell envelopeBiosynthesis and degradation of surface polysaccharides and lipopolysaccharidesbifunctional protein RfaE, domain I (TIGR02198; EC 2.7.1.-; HMM-score: 80.6)
    MetabolismBiosynthesis of cofactors, prosthetic groups, and carriersThiaminehydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase (TIGR00097; EC 2.7.1.49,2.7.4.7; HMM-score: 50.7)
    MetabolismEnergy metabolismBiosynthesis and degradation of polysaccharidestagatose-6-phosphate kinase (TIGR01231; EC 2.7.1.144; HMM-score: 25.9)
    MetabolismBiosynthesis of cofactors, prosthetic groups, and carriersPyridoxinepyridoxal kinase (TIGR00687; EC 2.7.1.35; HMM-score: 25.1)
  • TheSEED:  
    CarbohydratesMonosaccharidesDeoxyribose and Deoxynucleoside Catabolism Ribokinase (EC 2.7.1.15) 
    MonosaccharidesD-ribose utilization Ribokinase (EC 2.7.1.15) 
  • PFAM:
    Ribokinase (CL0118) PfkB; pfkB family carbohydrate kinase (PF00294; HMM-score: 227.8)
    Phos_pyr_kin; Phosphomethylpyrimidine kinase (PF08543; HMM-score: 49.9)
    NADP_Rossmann (CL0063) Glyco_hydro_4; Family 4 glycosyl hydrolase (PF02056; HMM-score: 14.2)
    Ig (CL0011) Adeno_E3_CR1; Adenovirus E3 region protein CR1 (PF02440; HMM-score: 11.7)

Structure, modifications & interactions[edit source | edit]

  • domains:
  • modifications:
  • cofactors:
  • effectors:
  • protein partners:

Localization[edit source | edit]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.67
    • Cytoplasmic Membrane Score: 0.01
    • Cellwall Score: 0.15
    • Extracellular Score: 0.17
    • 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
    • Ymax: 0.191
    • Ymax_pos: 24
    • Cmax: 0.161
    • Cmax_pos: 24
    • Smax: 0.3
    • Smax_pos: 21
    • Smean: 0.193
    • D: 0.191
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MTNKVVILGSTNVDQFLTVERYAQPGETLHVEEAQKAFGGGKGANQAIATARMQADTTFITKIGTDGVADFILEDFKVAHIDTSYIIKTAEAKTGQAFITVNAEGQNTIYVYGGANMTMTPEDVINAKDAIINADFVVAQLEVPIPAIISAFEIAKAHGVTTVLNPAPAKALPNELLSLIDIIVPNETEAELLSGIKVTNEQSMKDNANYFLSIGIKTVLITLGKQGTYFATKNQSQHIEAYKVNAIDTTAAGDTFIGAFVSRLNKSQDNLADAIDFGNKASSLTVQKHGAQASIPLLEEVNQV

Experimental data[edit source | edit]

Expression & Regulation[edit source | edit]

Operon[edit source | edit]

Regulation[edit source | edit]

Transcription pattern[edit source | edit]

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

Protein stability[edit source | edit]

  • half-life: no data available

Biological Material[edit source | edit]

Mutants[edit source | edit]

Expression vector[edit source | edit]

lacZ fusion[edit source | edit]

GFP fusion[edit source | edit]

two-hybrid system[edit source | edit]

FLAG-tag construct[edit source | edit]

Antibody[edit source | edit]

Other Information[edit source | edit]

You are kindly invited to share additional interesting facts.

Literature[edit source | edit]

References[edit source | edit]

  1. Stephan Michalik, Maren Depke, Annette Murr, Manuela Gesell Salazar, Ulrike Kusebauch, Zhi Sun, Tanja C Meyer, Kristin Surmann, Henrike Pförtner, Petra Hildebrandt, Stefan Weiss, Laura Marcela Palma Medina, Melanie Gutjahr, Elke Hammer, Dörte Becher, Thomas Pribyl, Sven Hammerschmidt, Eric W Deutsch, Samuel L Bader, Michael Hecker, Robert L Moritz, Ulrike Mäder, Uwe Völker, Frank Schmidt
    A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions.
    Sci Rep: 2017, 7(1);9718
    [PubMed:28887440] [WorldCat.org] [DOI] (I e)
  2. Maren Depke, Stephan Michalik, Alexander Rabe, Kristin Surmann, Lars Brinkmann, Nico Jehmlich, Jörg Bernhardt, Michael Hecker, Bernd Wollscheid, Zhi Sun, Robert L Moritz, Uwe Völker, Frank Schmidt
    A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies.
    Proteomics: 2015, 15(21);3648-3661
    [PubMed:26224020] [WorldCat.org] [DOI] (I p)
  3. Ulrike Mäder, Pierre Nicolas, Maren Depke, Jan Pané-Farré, Michel Debarbouille, Magdalena M van der Kooi-Pol, Cyprien Guérin, Sandra Dérozier, Aurelia Hiron, Hanne Jarmer, Aurélie Leduc, Stephan Michalik, Ewoud Reilman, Marc Schaffer, Frank Schmidt, Philippe Bessières, Philippe Noirot, Michael Hecker, Tarek Msadek, Uwe Völker, Jan Maarten van Dijl
    Staphylococcus aureus Transcriptome Architecture: From Laboratory to Infection-Mimicking Conditions.
    PLoS Genet.: 2016, 12(4);e1005962
    [PubMed:27035918] [WorldCat.org] [DOI] (I e)

Relevant publications[edit source | edit]

Jing Li, Chengliang Wang, Yejuan Wu, Minhao Wu, Lin Wang, Yang Wang, Jianye Zang
Crystal structure of Sa239 reveals the structural basis for the activation of ribokinase by monovalent cations.
J. Struct. Biol.: 2012, 177(2);578-82
[PubMed:22198595] [WorldCat.org] [DOI] (I p)