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FunGene: 08-OCT-2024

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus JSNZ
  • locus tag: JSNZ_000409
  • pan locus tag?: SAUPAN002192000
  • symbol: treR
  • pan gene symbol?: treR
  • synonym:
  • product: trehalose operon repressor

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: JSNZ_000409
  • symbol: treR
  • product: trehalose operon repressor
  • replicon: chromosome
  • strand: +
  • coordinates: 442435..443163
  • length: 729
  • 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
    421
    481
    541
    601
    661
    721
    ATGGCGAAACAAAAAAAGTTTATGAAGATTTATGAGGCGTTGAAAGAAGATATATTAAAC
    GGGCAGATTCAATATGGTGAACAAATTCCGTCTGAACATGATTTGGTGCAATTGTACCAG
    TCATCTCGAGAGACCGTGCGTAAGGCATTAGATTTGTTGGCATTAGACGGCATGATTCAA
    AAGATTCATGGTAAAGGGTCACTTGTCATTTATCAGGAGGTTACAGAGTTTCCATTTTCT
    GAACTTGTGAGTTTTAAAGAAATGCAAGAAGAAATGGGCGTCGCATATTTAACTGAAGTT
    GTTCTGAATGAGGTTGTTGAAGCGCATGAAGTTCCAGAAGTTCAACATGCTTTAAACATC
    AATTCTAGTGAATCCCTCATTCATATTGTTAGAACTCGTCGGCTTAACCAACATGTGAAG
    ATTGTTGATGAAGATTATTTTCTAAAGTCGATTGTTTCAGATATAGGTAATGATGTTGCG
    AGTGATTCTATTTATGATTATTTGGAAAAGGTATTAAATCTTAATATTAGTTATTCAAGT
    AAGTCTATTACTTTTGAACCGTTTGATGAACAAGCATATCAATTGTTTGGTGATGTATCG
    GTGGCTTATTCAGCAACAGTTCGAAGTATTGTGTATTTAGAAAATACAATGCCGTTTCAA
    TATAATATTTCAAAACATCTTGCAAATGAATTTAAATTTAACGACTTCTCAAGACGTCGT
    ATAAAGTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    729

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: JSNZ_000409
  • symbol: TreR
  • description: trehalose operon repressor
  • length: 242
  • theoretical pI: 4.92255
  • theoretical MW: 27976.6
  • GRAVY: -0.267769

⊟Function[edit | edit source]

  • TIGRFAM:
    Signal transduction Regulatory functions DNA interactions trehalose operon repressor (TIGR02404; HMM-score: 229.9)
    and 10 more
    Metabolism Transport and binding proteins Anions phosphonate metabolism transcriptional regulator PhnF (TIGR02325; HMM-score: 73.1)
    Signal transduction Regulatory functions DNA interactions phosphonate metabolism transcriptional regulator PhnF (TIGR02325; HMM-score: 73.1)
    Metabolism Energy metabolism Amino acids and amines histidine utilization repressor (TIGR02018; HMM-score: 61.8)
    Signal transduction Regulatory functions DNA interactions histidine utilization repressor (TIGR02018; HMM-score: 61.8)
    Signal transduction Regulatory functions DNA interactions phosphonate utilization transcriptional regulator PhnR (TIGR03337; HMM-score: 56.9)
    Metabolism Fatty acid and phospholipid metabolism Biosynthesis fatty acid metabolism transcriptional regulator FadR (TIGR02812; HMM-score: 23.5)
    Metabolism Fatty acid and phospholipid metabolism Degradation fatty acid metabolism transcriptional regulator FadR (TIGR02812; HMM-score: 23.5)
    Signal transduction Regulatory functions DNA interactions fatty acid metabolism transcriptional regulator FadR (TIGR02812; HMM-score: 23.5)
    phosphonate utilization associated transcriptional regulator (TIGR03338; HMM-score: 17.3)
    Genetic information processing Mobile and extrachromosomal element functions Prophage functions phage replisome organizer, putative, N-terminal region (TIGR01714; HMM-score: 14.5)
  • TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
  • PFAM:
    UTRA (CL0122) UTRA; UTRA domain (PF07702; HMM-score: 86.7)
    and 5 more
    HTH (CL0123) GntR; Bacterial regulatory proteins, gntR family (PF00392; HMM-score: 60)
    HTH_DeoR; DeoR-like helix-turn-helix domain (PF08220; HMM-score: 20.2)
    HTH_41; Helix-turn-helix domain (PF14502; HMM-score: 16)
    Phage_rep_org_N; N-terminal phage replisome organiser (Phage_rep_org_N) (PF09681; HMM-score: 15.8)
    SPOCS (CL0731) SipL; SipL, SPOCS domain (PF12673; 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 utilizationsee RegPrecise for N315
    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
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9917
    • Cytoplasmic Membrane Score: 0.0039
    • Cell wall & surface Score: 0.0001
    • Extracellular Score: 0.0042
  • LocateP:
  • 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]

  • GI:
  • RefSeq:
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MAKQKKFMKIYEALKEDILNGQIQYGEQIPSEHDLVQLYQSSRETVRKALDLLALDGMIQKIHGKGSLVIYQEVTEFPFSELVSFKEMQEEMGVAYLTEVVLNEVVEAHEVPEVQHALNINSSESLIHIVRTRRLNQHVKIVDEDYFLKSIVSDIGNDVASDSIYDYLEKVLNLNISYSSKSITFEPFDEQAYQLFGDVSVAYSATVRSIVYLENTMPFQYNISKHLANEFKFNDFSRRRIK

⊟Experimental data[edit | edit source]

  • experimentally validated: data available for NCTC8325
  • 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: CcpA regulon, TreR (repression) regulon
    CcpA(TF)important in Carbon catabolism;  regulation predicted or transferred from N315 and NCTC 8325  [2]
    TreR(TF)important in Trehalose utilization;  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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