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NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_01341
  • pan locus tag?: SAUPAN003721000
  • symbol: SAOUHSC_01341
  • pan gene symbol?: sbcD
  • synonym:
  • product: hypothetical protein

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAOUHSC_01341
  • symbol: SAOUHSC_01341
  • product: hypothetical protein
  • replicon: chromosome
  • strand: +
  • coordinates: 1279831..1280952
  • length: 1122
  • 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
    961
    1021
    1081
    ATGAAAATTATACATACAGCAGACTGGCACTTAGGGAAAATATTAAATGGCAAACAGCTT
    TTAGAAGATCAAGCGTATATTTTAGATATGTTCGTAGAAAAAATGAAAGAAGAAGAACCT
    GATATCATTGTGATAGCTGGAGATTTATATGACACAACATATCCAAGTAAAGATGCAATC
    ATGTTATTAGAACAAGCGATTGGAAAGTTAAATTTAGAACTGCGTATACCAATAATTATT
    ATTAGTGGAAATCACGATGGTAAAGAGAGGTTAAACTATGGGGCGAGTTGGTTTGAACAT
    AATCAGTTATTTATAAGAACAGATTTTACATCGATTAATTCACCAATAGAGATAAATGGG
    GTTAATTTTTATACACTCCCTTATGCTACTGTGAGCGAAATGAAACACTACTTTGAAGAT
    GACACCATTGAAACACATCAACAGGGAATTACGCGCTGTATTGAAACAATAGCACCGGAA
    ATTGATGAAGATGCCGTCAATATTTTAATTAGTCATCTGACTGTTCAAGGTGGAAAGACA
    TCTGATTCTGAAAGACCATTAACTATTGGAACGGTTGAATCAGTTCAGAAAGGTGTTTTT
    GATATATTTGATTATGTCATGCTAGGTCACTTGCATCATCCATTTAGTATAGAAGACGAC
    AAAATTAAATATAGTGGCTCCTTATTGCAGTATTCATTTTCGGAAGCGGGTCAAGCTAAA
    GGGTATAGACGTGTAACAATTAATGATGGCATTATTAACGATGTATTTATTCCTCTTAAG
    CCACTTAGACAATTGGAAATTATCTCAGGCGAATATAATGATGTTATTAATGAAAAAGTT
    CATGTGAAAAATAAAGATAATTATTTACATTTTAAACTTAAAAATATGTCTCATATTACT
    GATCCAATGATGAGTTTAAAACAAATTTATCCTAATACTTTAGCGCTGACGAATGAAACT
    TTTAATTACAATGAAGAAAATAATGCTATAGAAATAAGTGAAAAAGATGACATGTCAATT
    ATCGAAATGTTTTATAAACATATAACTGATAAAGAATTATCGGATATCCAATCTAAAAAG
    ATAAAAAATATTTTAGAAAACGAATTGAGAAAGGAGGATTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1122

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SAOUHSC_01341
  • symbol: SAOUHSC_01341
  • description: hypothetical protein
  • length: 373
  • theoretical pI: 4.71531
  • theoretical MW: 42935.5
  • GRAVY: -0.379625

⊟Function[edit | edit source]

  • TIGRFAM:
    Genetic information processing DNA metabolism DNA replication, recombination, and repair exonuclease SbcCD, D subunit (TIGR00619; HMM-score: 185)
    and 4 more
    metallophosphoesterase, DNA ligase-associated (TIGR04123; HMM-score: 19.2)
    Unknown function Enzymes of unknown specificity phosphodiesterase, MJ0936 family (TIGR00040; EC 3.1.-.-; HMM-score: 16.9)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA repair protein (mre11) (TIGR00583; HMM-score: 16.3)
    putative phosphoesterase (TIGR03729; HMM-score: 16.1)
  • TheSEED  :
    • Exonuclease SbcD
    DNA Metabolism DNA repair DNA repair, bacterial  Exonuclease SbcD
  • PFAM:
    Calcineurin (CL0163) Metallophos; Calcineurin-like phosphoesterase (PF00149; HMM-score: 57.1)
    and 4 more
    Metallophos_2; Calcineurin-like phosphoesterase superfamily domain (PF12850; HMM-score: 36.8)
    no clan defined SbcD_C; Type 5 capsule protein repressor C-terminal domain (PF12320; HMM-score: 34.4)
    DUF4468; Domain of unknown function (DUF4468) with TBP-like fold (PF14730; HMM-score: 13.5)
    Actin_ATPase (CL0108) MutL; MutL protein (PF13941; HMM-score: 10.7)

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

  • domains:
  • modifications:
  • cofactors:
  • effectors:

⊟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): 0.00114
    • TAT(Tat/SPI): 0.000045
    • LIPO(Sec/SPII): 0.000186
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MKIIHTADWHLGKILNGKQLLEDQAYILDMFVEKMKEEEPDIIVIAGDLYDTTYPSKDAIMLLEQAIGKLNLELRIPIIIISGNHDGKERLNYGASWFEHNQLFIRTDFTSINSPIEINGVNFYTLPYATVSEMKHYFEDDTIETHQQGITRCIETIAPEIDEDAVNILISHLTVQGGKTSDSERPLTIGTVESVQKGVFDIFDYVMLGHLHHPFSIEDDKIKYSGSLLQYSFSEAGQAKGYRRVTINDGIINDVFIPLKPLRQLEIISGEYNDVINEKVHVKNKDNYLHFKLKNMSHITDPMMSLKQIYPNTLALTNETFNYNEENNAIEISEKDDMSIIEMFYKHITDKELSDIQSKKIKNILENELRKED

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas [1] [2]
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell: data available for COL
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator: LexA* (repression) regulon
    LexA*(TF)important in SOS response; 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]

Ryan T Cirz, Marcus B Jones, Neill A Gingles, Timothy D Minogue, Behnam Jarrahi, Scott N Peterson, Floyd E Romesberg
Complete and SOS-mediated response of Staphylococcus aureus to the antibiotic ciprofloxacin.
J Bacteriol: 2007, 189(2);531-9
[PubMed:17085555] [WorldCat.org] [DOI] (P p)

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