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NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

  • 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 | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • 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 | 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
    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 | edit source]

Protein Data Bank: 3RY7

⊟General[edit | edit source]

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

⊟Function[edit | edit source]

  • reaction:
    EC 2.7.1.15?  ExPASy
    Ribokinase ATP + D-ribose = ADP + D-ribose 5-phosphate
  • TIGRFAM:
    Metabolism Energy metabolism Sugars ribokinase (TIGR02152; EC 2.7.1.15; HMM-score: 379.2)
    and 7 more
    Metabolism Energy metabolism Sugars 5-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 structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides bifunctional protein RfaE, domain I (TIGR02198; EC 2.7.1.-; HMM-score: 80.6)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Thiamine hydroxymethylpyrimidine kinase/phosphomethylpyrimidine kinase (TIGR00097; EC 2.7.1.49,2.7.4.7; HMM-score: 50.7)
    Metabolism Energy metabolism Biosynthesis and degradation of polysaccharides tagatose-6-phosphate kinase (TIGR01231; EC 2.7.1.144; HMM-score: 25.9)
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Pyridoxine pyridoxal kinase (TIGR00687; EC 2.7.1.35; HMM-score: 25.1)
  • TheSEED  :
    • Ribokinase (EC 2.7.1.15)
    Carbohydrates Monosaccharides D-ribose utilization  Ribokinase (EC 2.7.1.15)
    and 1 more
    Carbohydrates Monosaccharides Deoxyribose and Deoxynucleoside Catabolism  Ribokinase (EC 2.7.1.15)
  • PFAM:
    Ribokinase (CL0118) PfkB; pfkB family carbohydrate kinase (PF00294; HMM-score: 227.8)
    and 3 more
    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 & cofactors[edit | edit source]

  • domains:
  • modifications:
  • cofactors: Mg2+
  • effectors:

⊟Localization[edit | edit source]

  • 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
    • SP(Sec/SPI): 0.014499
    • TAT(Tat/SPI): 0.001126
    • LIPO(Sec/SPII): 0.001169
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MTNKVVILGSTNVDQFLTVERYAQPGETLHVEEAQKAFGGGKGANQAIATARMQADTTFITKIGTDGVADFILEDFKVAHIDTSYIIKTAEAKTGQAFITVNAEGQNTIYVYGGANMTMTPEDVINAKDAIINADFVVAQLEVPIPAIISAFEIAKAHGVTTVLNPAPAKALPNELLSLIDIIVPNETEAELLSGIKVTNEQSMKDNANYFLSIGIKTVLITLGKQGTYFATKNQSQHIEAYKVNAIDTTAAGDTFIGAFVSRLNKSQDNLADAIDFGNKASSLTVQKHGAQASIPLLEEVNQV

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas [1] [2]
  • 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; transcription unit transferred from N315 data RegPrecise  [3]
    CcpA*(TF)important in Carbon catabolism; RegPrecise    transcription unit transferred from N315 data 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. ↑ 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);3648-61
    [PubMed:26224020] [WorldCat.org] [DOI] (I p)
  2. ↑ 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)
  3. ↑ 3.0 3.1 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 | edit source]

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)

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