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FunGene: 08-OCT-2024

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus JSNZ
  • locus tag: JSNZ_002056
  • pan locus tag?: SAUPAN005381000
  • symbol: sceD
  • pan gene symbol?: sceD
  • synonym:
  • product: lytic transglycosylase SceD

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: JSNZ_002056
  • symbol: sceD
  • product: lytic transglycosylase SceD
  • replicon: chromosome
  • strand: -
  • coordinates: 2071857..2072552
  • length: 696
  • 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
    ATGAAGAAAACATTACTCGCATCATCATTAGCAGTAGGTTTAGGAATCGTAGCAGGAAAT
    GCAGGTCACGAAGCCCATGCAAGTGAAGCGGACTTAAATAAAGCATCTTTAGCGCAAATG
    GCGCAATCAAATGATCAAACATTAAATCAAAAACCAATTGAAGCTGGGGCTTATAATTAT
    ACATTTGACTATGAAGGGTTTACTTATCACTTTGAATCAGATGGTACACACTTTGCTTGG
    AATTACCATGCAACAGGTGCTAATGGAGCAAACATGAGTGCACAAGCACCTGCAACTAAT
    AATGTTGAACCATCAGCTGTTCAAGCTAATCAAGTACAATCACAAGAAGTTGAAGCACCA
    CAAAATGCTCAAACTCAACAACCACAAGCATTAACATCAAACAATTCACAAGTTACTGCA
    ACACCAACTGAATCAAAAGCATCAGAAGGTTCATCAGTAAATGTGAATGCTCATCTAAAA
    CAAATTGCTCAACGTGAATCAGGTGGCAATATTCATGCTGTAAATCCAACATCAGGTGCA
    GCTGGTAAGTATCAATTCTTACAATCAACTTGGGATTCAGTAGCACCTGCTAAATATAAA
    GGTGTATCACCAGCAAATGCTCCTGAAAGTGTTCAAGATGCCGCAGCAGTAAAATTATAT
    AACACTGGTGGCGCTGGACATTGGGTTACTGCATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    696

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: JSNZ_002056
  • symbol: SceD
  • description: lytic transglycosylase SceD
  • length: 231
  • theoretical pI: 5.79471
  • theoretical MW: 24103
  • GRAVY: -0.527706

⊟Function[edit | edit source]

  • TIGRFAM:
  • TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
  • PFAM:
    Lysozyme (CL0037) Transglycosylas; Transglycosylase-like domain (PF06737; HMM-score: 89.8)
    and 1 more
    SLT; Transglycosylase SLT domain (PF01464; HMM-score: 23.8)

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

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

⊟Localization[edit | edit source]

  • PSORTb: Extracellular
    • Cytoplasmic Score: 0
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 0.02
    • Extracellular Score: 9.98
    • Internal Helices: 0
  • DeepLocPro: Extracellular
    • Cytoplasmic Score: 0.0001
    • Cytoplasmic Membrane Score: 0.0003
    • Cell wall & surface Score: 0.0831
    • Extracellular Score: 0.9165
  • LocateP:
  • SignalP: Signal peptide SP(Sec/SPI) length 27 aa
    • SP(Sec/SPI): 0.986312
    • TAT(Tat/SPI): 0.003284
    • LIPO(Sec/SPII): 0.008779
    • Cleavage Site: CS pos: 27-28. AHA-SE. Pr: 0.9175
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq:
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MKKTLLASSLAVGLGIVAGNAGHEAHASEADLNKASLAQMAQSNDQTLNQKPIEAGAYNYTFDYEGFTYHFESDGTHFAWNYHATGANGANMSAQAPATNNVEPSAVQANQVQSQEVEAPQNAQTQQPQALTSNNSQVTATPTESKASEGSSVNVNAHLKQIAQRESGGNIHAVNPTSGAAGKYQFLQSTWDSVAPAKYKGVSPANAPESVQDAAAVKLYNTGGAGHWVTA

⊟Experimental data[edit | edit source]

  • experimentally validated: data available for COL, NCTC8325
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulators: MurR* (repression) regulon, WalR* (activation) regulon
    MurR*(TF)important in N-acetylmuramate utilization;  regulation predicted or transferred from N315 and NCTC 8325  [1]
    WalR*(response regulator)important in cell wall homeostasis;  regulation predicted or transferred from N315 and NCTC 8325  [2] [3]

⊟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. ↑ 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)
  2. ↑ Sarah Dubrac, Ivo Gomperts Boneca, Olivier Poupel, Tarek Msadek
    New insights into the WalK/WalR (YycG/YycF) essential signal transduction pathway reveal a major role in controlling cell wall metabolism and biofilm formation in Staphylococcus aureus.
    J Bacteriol: 2007, 189(22);8257-69
    [PubMed:17827301] [WorldCat.org] [DOI] (I p)
  3. ↑ Aurélia Delauné, Sarah Dubrac, Charlène Blanchet, Olivier Poupel, Ulrike Mäder, Aurélia Hiron, Aurélie Leduc, Catherine Fitting, Pierre Nicolas, Jean-Marc Cavaillon, Minou Adib-Conquy, Tarek Msadek
    The WalKR system controls major staphylococcal virulence genes and is involved in triggering the host inflammatory response.
    Infect Immun: 2012, 80(10);3438-53
    [PubMed:22825451] [WorldCat.org] [DOI] (I p)

⊟Relevant publications[edit | edit source]

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