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NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_00439
  • pan locus tag?: SAUPAN002192000
  • symbol: SAOUHSC_00439
  • pan gene symbol?: treR
  • synonym:
  • product: hypothetical protein

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAOUHSC_00439
  • symbol: SAOUHSC_00439
  • product: hypothetical protein
  • replicon: chromosome
  • strand: +
  • coordinates: 443300..444028
  • length: 729
  • 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
    ATGGCGAAACAAAAAAAGTTTATGAAGATTTATGAGGCGTTGAAAGAAGATATATTAAAC
    GGGCAGATTCAATATGGTGAACAAATTCCGTCTGAACATGATTTGGTGCAATTGTACCAG
    TCATCTCGAGAGACCGTGCGTAAGGCATTAGATTTGTTGGCATTAGACGGCATGATTCAA
    AAGATTCATGGTAAAGGGTCACTTGTCATTTATCAGGAGGTTACAGAGTTTCCATTTTCT
    GAACTTGTTAGTTTTAAAGAAATGCAAGAAGAAATGGGCGTCGCATATTTAACTGAAGTT
    GTTGTGAATGAGGTTGTTGAAGCGCATGAAGTTCCAGAAGTTCAACATGCTTTAAACATC
    AATTCTAGTGAATCACTCATTCATATTGTTAGAACTCGTCGGCTTAACCAACATGTGAAG
    ATTGTTGATGAAGATTATTTTCTAAAGTCGATTGTTTCAGATATAGGTAATGATGTTGCG
    AGTGATTCTATTTATGATTATTTGGAAAAGGTATTAAATCTTAATATTAGTTATTCAAGT
    AAGTCTATTACTTTTGAACCGTTTGATGAACAAGCATATCAATTGTTTGGTGATGTATCG
    GTGGCTTATTCAGCAACAGTTCGAAGTATTGTGTATTTAGAAAATACAATGCCGTTTCAA
    TATAATATTTCAAAACATCTTGCAAATGAATTTAAATTTAATGACTTCTCAAGACGTCGT
    ATAAAGTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    729

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SAOUHSC_00439
  • symbol: SAOUHSC_00439
  • description: hypothetical protein
  • length: 242
  • theoretical pI: 4.92255
  • theoretical MW: 27962.5
  • GRAVY: -0.266116

⊟Function[edit | edit source]

  • TIGRFAM:
    Signal transduction Regulatory functions DNA interactions trehalose operon repressor (TIGR02404; HMM-score: 229.5)
    and 10 more
    Metabolism Transport and binding proteins Anions phosphonate metabolism transcriptional regulator PhnF (TIGR02325; HMM-score: 72.4)
    Signal transduction Regulatory functions DNA interactions phosphonate metabolism transcriptional regulator PhnF (TIGR02325; HMM-score: 72.4)
    Metabolism Energy metabolism Amino acids and amines histidine utilization repressor (TIGR02018; HMM-score: 62)
    Signal transduction Regulatory functions DNA interactions histidine utilization repressor (TIGR02018; HMM-score: 62)
    Signal transduction Regulatory functions DNA interactions phosphonate utilization transcriptional regulator PhnR (TIGR03337; HMM-score: 57.1)
    Metabolism Fatty acid and phospholipid metabolism Biosynthesis fatty acid metabolism transcriptional regulator FadR (TIGR02812; HMM-score: 23.3)
    Metabolism Fatty acid and phospholipid metabolism Degradation fatty acid metabolism transcriptional regulator FadR (TIGR02812; HMM-score: 23.3)
    Signal transduction Regulatory functions DNA interactions fatty acid metabolism transcriptional regulator FadR (TIGR02812; HMM-score: 23.3)
    phosphonate utilization associated transcriptional regulator (TIGR03338; HMM-score: 17.4)
    Genetic information processing Mobile and extrachromosomal element functions Prophage functions phage replisome organizer, putative, N-terminal region (TIGR01714; HMM-score: 14.7)
  • TheSEED  :
    • Trehalose operon transcriptional repressor TreR, HutC family
    Carbohydrates Di- and oligosaccharides Trehalose Uptake and Utilization  Trehalose operon transcriptional repressor
  • PFAM:
    UTRA (CL0122) UTRA; UTRA domain (PF07702; HMM-score: 91.5)
    and 4 more
    HTH (CL0123) GntR; Bacterial regulatory proteins, gntR family (PF00392; HMM-score: 60)
    HTH_DeoR; DeoR-like helix-turn-helix domain (PF08220; HMM-score: 20.9)
    HTH_41; Helix-turn-helix domain (PF14502; HMM-score: 14.3)
    Phage_rep_org_N; N-terminal phage replisome organiser (Phage_rep_org_N) (PF09681; HMM-score: 13.6)

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

  • domains:
  • modifications:
  • cofactors:
  • effector: Trehalose-6-phosphate
  • genes regulated by TreR*, TF important in Trehalose utilization [1]
    repression
    treP* > treC* > treR*

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 7.5
    • Cytoplasmic Membrane Score: 1.15
    • Cellwall Score: 0.62
    • Extracellular Score: 0.73
    • 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): 0.002243
    • TAT(Tat/SPI): 0.000124
    • LIPO(Sec/SPII): 0.000191
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MAKQKKFMKIYEALKEDILNGQIQYGEQIPSEHDLVQLYQSSRETVRKALDLLALDGMIQKIHGKGSLVIYQEVTEFPFSELVSFKEMQEEMGVAYLTEVVVNEVVEAHEVPEVQHALNINSSESLIHIVRTRRLNQHVKIVDEDYFLKSIVSDIGNDVASDSIYDYLEKVLNLNISYSSKSITFEPFDEQAYQLFGDVSVAYSATVRSIVYLENTMPFQYNISKHLANEFKFNDFSRRRIK

⊟Experimental data[edit | edit source]

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

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulators: TreR* (repression) regulon, CcpA* regulon
    TreR*(TF)important in Trehalose utilization; transcription unit transferred from N315 data RegPrecise  [1]
    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. ↑ 1.0 1.1 1.2 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)
  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);3648-61
    [PubMed:26224020] [WorldCat.org] [DOI] (I p)
  3. ↑ 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)

⊟Relevant publications[edit | edit source]

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