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NCBI: 01-DEC-2025

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus JSNZ
  • locus tag: EGJ38_001485 [new locus tag: EGJ38_RS07415 ]
  • pan locus tag?: SAUPAN004030000
  • symbol: xerD
  • pan gene symbol?: xerD
  • synonym:
  • alternate name: JSNZ_001485
  • product: site-specific tyrosine recombinase XerD

⊟Additional information (user-provided)[edit | edit source]

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: EGJ38_001485 [new locus tag: EGJ38_RS07415 ]
  • symbol: xerD
  • product: site-specific tyrosine recombinase XerD
  • replicon: chromosome
  • strand: -
  • coordinates: 1529028..1529915
  • length: 888
  • essential: unknown other strains

⊟Accession numbers[edit | edit source]

  • Gene ID:
  • RefSeq: MGT2423444 NCBI
  • BioCyc:
  • MicrobesOnline:

⊟Phenotype[edit | edit source]

⊟Additional information (user-provided)[edit | edit source]

⊟DNA sequence[edit | edit source]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    721
    781
    841
    ATGGAAACAATTATTGAAGAATATTTGCGTTTTATACAAATTGAAAAAGGACTAAGTTCT
    AACACAATTGGTGCTTATAGACGTGATTTGAAAAAGTATCAAGATTATATGACTGAACAT
    CATATCTCGCATATTGATTTTATAGATCGACAATTAATTCAAGAGTGTTTGGGGCATTTA
    ATAGACCAAGGGCAATCTGCTAAATCTATTGCGCGATTTATTTCAACAATCCGTAGTTTT
    CATCAATTTGCTATAAGAGAAAAATATGCGGCGAAAGATCCAACGGTATTATTAGATTCA
    CCAAAATATGACAAAAAATTGCCTGACGTTTTAAATGTTGACGAAGTGTTGGCTTTATTA
    GAAACGCCGGATCTAAATAAAATTAATGGTTATCGTGATCGTACGATGTTAGAACTTCTG
    TACGCAACGGGAATGCGTGTATCTGAATTGATACATTTAGAGTTAGAAAACGTGAACTTA
    ATAATGGGATTTGTACGCGTATTTGGTAAAGGCGATAAAGAAAGAATTGTACCATTAGGC
    GACGCAGTCATTGAGTACTTAACTACTTATATTGAAACGATTAGACCGCAACTTTTAAAA
    AAGACTGTTACCGAAGTCTTATTTTTAAATATGCATGGTAAACCTTTATCGCGACAAGCA
    ATATGGAAAATGATTAAACAAAATGGTGTAAAGGCAAACATTAAAAAGACGTTAACGCCA
    CATACGTTACGCCACTCTTTTGCGACACATTTATTGGAAAATGGCGCAGATTTAAGAGCA
    GTGCAAGAGATGTTAGGTCACTCTGACATATCTACTACGCAACTCTATACACATGTTTCA
    AAATCTCAAATTAGAAAAATGTATAACCAATTTCATCCTAGAGCATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    888


⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: EGJ38_001485 [new locus tag: EGJ38_RS07415 ]
  • symbol: XerD
  • description: site-specific tyrosine recombinase XerD
  • length: 295
  • theoretical pI: 9.46286
  • theoretical MW: 34132.3
  • GRAVY: -0.316271

⊟Function[edit | edit source]

  • TIGRFAM:
    Genetic information processing DNA metabolism DNA replication, recombination, and repair tyrosine recombinase XerD (TIGR02225; HMM-score: 396.5)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair tyrosine recombinase XerC (TIGR02224; HMM-score: 332.4)
    and 2 more
    Genetic information processing DNA metabolism DNA replication, recombination, and repair integron integrase (TIGR02249; HMM-score: 154)
    Genetic information processing Mobile and extrachromosomal element functions Other integron integrase (TIGR02249; HMM-score: 154)
  • TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
  • PFAM:
    DNA-mend (CL0382) Phage_integrase; Phage integrase family (PF00589; HMM-score: 184.9)
    and 6 more
    l-integrase_N (CL0469) Phage_int_SAM_1; Phage integrase, N-terminal SAM-like domain (PF02899; HMM-score: 97.6)
    Phage_int_SAM_5; Phage integrase SAM-like domain (PF13102; HMM-score: 27.6)
    Phage_int_SAM_4; Phage integrase, N-terminal SAM-like domain (PF13495; HMM-score: 15.1)
    HTH (CL0123) Linker_histone; linker histone H1 and H5 family (PF00538; HMM-score: 13.5)
    PepSY (CL0320) DUF3192; Protein of unknown function (DUF3192) (PF11399; HMM-score: 12.3)
    no clan defined UPF0154; Uncharacterised protein family (UPF0154) (PF03672; HMM-score: 12.2)

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

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

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.97
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 0.01
    • Extracellular Score: 0.02
    • Internal Helices: 0
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9975
    • Cytoplasmic Membrane Score: 0.0018
    • Cell wall & surface Score: 0.0001
    • Extracellular Score: 0.0006
  • LocateP:
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.00332
    • TAT(Tat/SPI): 0.000702
    • LIPO(Sec/SPII): 0.000467
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq: MGT2423444 NCBI
  • UniProt:

⊟Additional information (user-provided)[edit | edit source]

⊟Protein sequence[edit | edit source]

  • METIIEEYLRFIQIEKGLSSNTIGAYRRDLKKYQDYMTEHHISHIDFIDRQLIQECLGHLIDQGQSAKSIARFISTIRSFHQFAIREKYAAKDPTVLLDSPKYDKKLPDVLNVDEVLALLETPDLNKINGYRDRTMLELLYATGMRVSELIHLELENVNLIMGFVRVFGKGDKERIVPLGDAVIEYLTTYIETIRPQLLKKTVTEVLFLNMHGKPLSRQAIWKMIKQNGVKANIKKTLTPHTLRHSFATHLLENGADLRAVQEMLGHSDISTTQLYTHVSKSQIRKMYNQFHPRA

⊟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: data available for COL
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator: PerR (repression) regulon
    PerR(TF)important in Oxidative stress response;  regulation predicted or transferred from N315 and NCTC 8325  [2]

⊟Additional information (user-provided)[edit | edit source]

⊟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]

⊟Additional information (user-provided)[edit | edit source]

⊟Other information (user-provided)[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. ↑ 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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