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NCBI: 10-JUN-2013

Summary[edit source | edit]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL2130 [new locus tag: SACOL_RS11150 ]
  • pan locus tag?: SAUPAN005435000
  • symbol: deoD
  • pan gene symbol?: deoD
  • synonym:
  • product: purine nucleoside phosphorylase

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: SACOL2130 [new locus tag: SACOL_RS11150 ]
  • symbol: deoD
  • product: purine nucleoside phosphorylase
  • replicon: chromosome
  • strand: +
  • coordinates: 2191441..2192151
  • length: 711
  • essential: unknown 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
    ATGACAAAAGGTACACCACATATTCAACCAAATGGAGTAAAAATTGCTAAAACAGTATTA
    ATGCCTGGCGATCCGCTACGTGCAAAATATATTGCTGATAATTTTTTAGAAAATGTTGAA
    CAATTTAACGATGTACGTAACATGTTTGGTTACACTGGTACATATAAAGGTAAAGAAGTT
    TCTGTAATGGGTTCTGGTATGGGTATTCCAAGTATTGGTATTTACTCATATGAGTTATAC
    AACTTCTTTGATGTAGATACAATCATTCGTATCGGTTCTTGTGGCGCATTACAAGAAAAT
    GTTAACTTATACGATGTTATTATTGCACAAGCTGCATCAACTAATTCAAATTATGTAGAT
    CAATACAATATTCCAGGTCATTTCGCGCCTATCGCTGACTTCGAGTTAGTAACTAAAGCT
    AAAAATGTCGCTGACCAAATCGGTGCTACTACACACGTAGGTAACGTATTATCTTCTGAT
    ACATTTTACAATGCCGATCCAACATTCAATGATGCTTGGAAAAAAATGGGTATTTTAGGT
    ATCGAAATGGAATCAGCTGGTTTATATTTAAATGCGATTCATGCTGGTAAAAAAGCACTT
    GGTATTTTCACAGTAAGTGATCATATTTTACGTGACGAAGCTACTACACCTGAAGAACGT
    CAAAATTCATTTACACAAATGATGGAAATCGCTTTAGAAATCGCAGAGTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    711

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: SACOL2130 [new locus tag: SACOL_RS11150 ]
  • symbol: DeoD
  • description: purine nucleoside phosphorylase
  • length: 236
  • theoretical pI: 4.57428
  • theoretical MW: 25908.1
  • GRAVY: -0.12839

Function[edit source | edit]

  • reaction:
    EC 2.4.2.1?  ExPASy
    Purine-nucleoside phosphorylasePurine nucleoside + phosphate = purine + alpha-D-ribose 1-phosphatePurine deoxynucleoside + phosphate = purine + 2'-deoxy-alpha-D-ribose 1-phosphate
  • TIGRFAM:
    MetabolismPurines, pyrimidines, nucleosides, and nucleotidesSalvage of nucleosides and nucleotidespurine nucleoside phosphorylase (TIGR00107; EC 2.4.2.1; HMM-score: 309.6)
    MetabolismPurines, pyrimidines, nucleosides, and nucleotidesSalvage of nucleosides and nucleotidesuridine phosphorylase (TIGR01718; EC 2.4.2.3; HMM-score: 120.1)
    MetabolismPurines, pyrimidines, nucleosides, and nucleotidesSalvage of nucleosides and nucleotidesMTA/SAH nucleosidase (TIGR01704; EC 3.2.2.16,3.2.2.9; HMM-score: 37)
    MetabolismCentral intermediary metabolismOtherMTA/SAH nucleosidase (TIGR01704; EC 3.2.2.16,3.2.2.9; HMM-score: 37)
    putative AMP nucleosidase (TIGR01721; HMM-score: 29.8)
    MetabolismPurines, pyrimidines, nucleosides, and nucleotidesSalvage of nucleosides and nucleotidesuridine phosphorylase (TIGR01719; EC 2.4.2.3; HMM-score: 26.3)
    futalosine hydrolase (TIGR03664; EC 3.2.2.26; HMM-score: 24)
    hopanoid-associated phosphorylase (TIGR03468; HMM-score: 22.4)
  • TheSEED:  
    CarbohydratesMonosaccharidesDeoxyribose and Deoxynucleoside Catabolism Purine nucleoside phosphorylase (EC 2.4.2.1) 
    Nucleosides and NucleotidesPurinesPurine conversions Purine nucleoside phosphorylase (EC 2.4.2.1) 
    Pyrimidinespyrimidine conversions Purine nucleoside phosphorylase (EC 2.4.2.1) 
  • PFAM:
    PUP (CL0408) PNP_UDP_1; Phosphorylase superfamily (PF01048; HMM-score: 128.7)
    no clan definedCu; Cupiennin (PF17563; HMM-score: 12.2)

Structure, modifications & interactions[edit source | edit]

  • domains:
  • modifications:
  • cofactors:
  • effectors:
  • protein partners:
    SACOL0731LysR family transcriptional regulator  [1] (data from MRSA252)

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: 0.159
    • Ymax_pos: 16
    • Cmax: 0.146
    • Cmax_pos: 29
    • Smax: 0.361
    • Smax_pos: 27
    • Smean: 0.199
    • D: 0.174
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MTKGTPHIQPNGVKIAKTVLMPGDPLRAKYIADNFLENVEQFNDVRNMFGYTGTYKGKEVSVMGSGMGIPSIGIYSYELYNFFDVDTIIRIGSCGALQENVNLYDVIIAQAASTNSNYVDQYNIPGHFAPIADFELVTKAKNVADQIGATTHVGNVLSSDTFYNADPTFNDAWKKMGILGIEMESAGLYLNAIHAGKKALGIFTVSDHILRDEATTPEERQNSFTQMMEIALEIAE

Experimental data[edit source | edit]

  • experimentally validated: PeptideAtlas
    experimental localization: Cytoplasmic [2] [3] [4] [5]
    quantitative data / protein copy number per cell: 2591 [6]

Expression & Regulation[edit source | edit]

Operon[edit source | edit]

  • deoD no polycistronic organisation predicted

Regulation[edit source | edit]

  • sigma factor:
  • regulator:

Transcription pattern[edit source | edit]

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

Protein stability[edit source | edit]

  • half-life: 24.99 h [7]

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. Artem Cherkasov, Michael Hsing, Roya Zoraghi, Leonard J Foster, Raymond H See, Nikolay Stoynov, Jihong Jiang, Sukhbir Kaur, Tian Lian, Linda Jackson, Huansheng Gong, Rick Swayze, Emily Amandoron, Farhad Hormozdiari, Phuong Dao, Cenk Sahinalp, Osvaldo Santos-Filho, Peter Axerio-Cilies, Kendall Byler, William R McMaster, Robert C Brunham, B Brett Finlay, Neil E Reiner
    Mapping the protein interaction network in methicillin-resistant Staphylococcus aureus.
    J. Proteome Res.: 2011, 10(3);1139-50
    [PubMed:21166474] [WorldCat.org] [DOI] (I p)
  2. 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)
  3. 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)
  4. 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)
  5. Andreas Otto, Jan Maarten van Dijl, Michael Hecker, Dörte Becher
    The Staphylococcus aureus proteome.
    Int. J. Med. Microbiol.: 2014, 304(2);110-20
    [PubMed:24439828] [WorldCat.org] [DOI] (I p)
  6. Daniela Zühlke, Kirsten Dörries, Jörg Bernhardt, Sandra Maaß, Jan Muntel, Volkmar Liebscher, Jan Pané-Farré, Katharina Riedel, Michael Lalk, Uwe Völker, Susanne Engelmann, Dörte Becher, Stephan Fuchs, Michael Hecker
    Costs of life - Dynamics of the protein inventory of Staphylococcus aureus during anaerobiosis.
    Sci Rep: 2016, 6;28172
    [PubMed:27344979] [WorldCat.org] [DOI] (I e)
  7. Stephan Michalik, Jörg Bernhardt, Andreas Otto, Martin Moche, Dörte Becher, Hanna Meyer, Michael Lalk, Claudia Schurmann, Rabea Schlüter, Holger Kock, Ulf Gerth, Michael Hecker
    Life and death of proteins: a case study of glucose-starved Staphylococcus aureus.
    Mol. Cell Proteomics: 2012, 11(9);558-70
    [PubMed:22556279] [WorldCat.org] [DOI] (I p)

Relevant publications[edit source | edit]