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Pangenome04-0298108BA0217611819-9771193COLECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159LGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50N315NCTC8325NewmanRF122ST398T0131TCH60TW20USA300_FPR3757USA300_TCH1516VC40

NCBI: 03-AUG-2016

Summary[edit source | edit]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_02020
  • pan locus tag?: SAUPAN001683000
  • symbol: SAOUHSC_02020
  • pan gene symbol?:
  • synonym:
  • product: holin

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: SAOUHSC_02020
  • symbol: SAOUHSC_02020
  • product: holin
  • replicon: chromosome
  • strand: -
  • coordinates: 1926073..1926510
  • length: 438
  • essential: no DEG

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
    ATGGATATTAACTGGAAATTGAGATTCAAAAACAAAGCAGTACTAACTGGTTTAGTTGGA
    GCATTGTTGCTATTTATCAAGCAAGTCACGGATTTATTCGGATTAGATTTATCTACTCAA
    TTAAATCAAGCTAGCGCAATTATAGGCGCTATCCTCACGTTACTTACAGGTATTGGCGTT
    ATTACTGACCCAACGTCAAAAGGCGTCTCAGATTCATCTATAGCACAGACATATCAAGCG
    CCTAGAGATAGCAAAAAAGAAGAACAACAAGTTACGTGGAAATCATCACAAGACAGTAGT
    TTAACGCCGGAATTAAGCGCGAAAGCACCAAAAGAATATGATACATCACAACCTTTCACA
    GACGCCTCTAACGATGTTGGCTTTGATGTGAATGAGTATCATCATGGAGGTGGCGACAAT
    GCAAGCAAAATTAACTAA
    60
    120
    180
    240
    300
    360
    420
    438

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: SAOUHSC_02020
  • symbol: SAOUHSC_02020
  • description: holin
  • length: 145
  • theoretical pI: 4.844
  • theoretical MW: 15645.4
  • GRAVY: -0.313793

Function[edit source | edit]

  • TIGRFAM:
    Genetic information processingMobile and extrachromosomal element functionsProphage functionsholin, phage phi LC3 family (TIGR01598; HMM-score: 118.2)
  • TheSEED:  
    Phage holin 
  • PFAM:
    no clan definedPhage_holin_1; Bacteriophage holin (PF04531; HMM-score: 95)
    and 1 more
    RP1-2; Tubuliform egg casing silk strands structural domain (PF12042; HMM-score: 13.2)

Structure, modifications & interactions[edit source | edit]

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

Localization[edit source | edit]

  • PSORTb: unknown (no significant prediction)
    • Cytoplasmic Score: 2.5
    • Cytoplasmic Membrane Score: 2.5
    • Cellwall Score: 2.5
    • Extracellular Score: 2.5
    • Internal Helices: 2
  • LocateP: Multi-transmembrane
    • Prediction by SwissProt Classification: Membrane
    • Pathway Prediction: Sec-(SPI)
    • Intracellular Possibility: 0
    • Signal Peptide Possibility: 0
    • N-terminally Anchored Score: 1
    • Predicted Cleavage Site: No CleavageSite
  • SignalP: no predicted signal peptide
    • Ymax: 0.183
    • Ymax_pos: 12
    • Cmax: 0.307
    • Cmax_pos: 47
    • Smax: 0.408
    • Smax_pos: 7
    • Smean: 0.342
    • D: 0.245
  • predicted transmembrane helices (TMHMM): 2

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MDINWKLRFKNKAVLTGLVGALLLFIKQVTDLFGLDLSTQLNQASAIIGAILTLLTGIGVITDPTSKGVSDSSIAQTYQAPRDSKKEEQQVTWKSSQDSSLTPELSAKAPKEYDTSQPFTDASNDVGFDVNEYHHGGGDNASKIN

Experimental data[edit source | edit]

Expression & Regulation[edit source | edit]

Operon[edit source | edit]

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: 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);3648-61
    [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]