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NCBI: 03-AUG-2016

Summary[edit source | edit]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_01591
  • pan locus tag?: SAUPAN004030000
  • symbol: SAOUHSC_01591
  • pan gene symbol?: xerD
  • synonym:
  • product: integrase/recombinase XerD

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: SAOUHSC_01591
  • symbol: SAOUHSC_01591
  • product: integrase/recombinase XerD
  • replicon: chromosome
  • strand: -
  • coordinates: 1516996..1517883
  • length: 888
  • essential: no DEG other strains

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
    481
    541
    601
    661
    721
    781
    841
    ATGGAAACAATTATTGAAGAATATTTGCGTTTTATACAAATTGAAAAAGGACTAAGTTCT
    AACACAATTGGTGCTTATAGACGTGATTTGAAAAAGTATCAAGATTATATGACTGAACAT
    CATATCTCGCATATTGATTTTATAGATCGACAATTAATTCAAGAGTGTTTGGGGCATTTA
    ATAGACCAAGGGCAATCTGCTAAATCTATTGCGCGATTTATTTCAACAATCCGTAGTTTT
    CATCAATTTGCTATAAGAGAAAAATATGCGGCGAAAGATCCAACGGTATTATTAGATTCA
    CCAAAATATGACAAAAAATTGCCTGACGTTTTAAATGTTGACGAAGTGTTGGCTTTATTA
    GAAACGCCAGATTTAAATAAAATTAATGGATATCGTGATCGTACGATGTTAGAACTTCTG
    TACGCAACGGGAATGCGTGTATCTGAATTGATACATTTAGAGTTAGAAAACGTGAACTTA
    ATAATGGGATTTGTACGCGTATTTGGTAAAGGCGATAAAGAAAGAATTGTACCATTAGGC
    GACGCAGTCATTGAGTACTTAACTACTTATATTGAAACGATTAGACCGCAACTTTTAAAA
    AAGACTGTTACTGAAGTCTTATTTTTAAATATGCATGGTAAACCTTTATCACGACAAGCA
    ATATGGAAAATGATTAAACAAAATGGTGTAAAGGCAAACATTAAAAAGACGTTAACGCCA
    CATACGTTACGCCACTCTTTTGCGACACATTTATTGGAAAATGGCGCAGATTTAAGAGCA
    GTGCAAGAGATGTTAGGTCACTCTGACATATCTACTACCCAACTCTATACACATGTTTCG
    AAATCTCAAATTAGAAAAATGTATAACCAATTTCATCCTAGAGCATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    888

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: SAOUHSC_01591
  • symbol: SAOUHSC_01591
  • description: integrase/recombinase XerD
  • length: 295
  • theoretical pI: 9.46286
  • theoretical MW: 34132.3
  • GRAVY: -0.316271

Function[edit source | edit]

  • reaction:
  • TIGRFAM:
    Genetic information processingDNA metabolismDNA replication, recombination, and repairtyrosine recombinase XerD (TIGR02225; HMM-score: 396.5)
    Genetic information processingDNA metabolismDNA replication, recombination, and repairtyrosine recombinase XerC (TIGR02224; HMM-score: 332.4)
    Genetic information processingDNA metabolismDNA replication, recombination, and repairintegron integrase (TIGR02249; HMM-score: 154)
    Genetic information processingMobile and extrachromosomal element functionsOtherintegron integrase (TIGR02249; HMM-score: 154)
  • TheSEED:  
    Site-specific tyrosine recombinase XerD 
  • PFAM:
    DNA-mend (CL0382) Phage_integrase; Phage integrase family (PF00589; HMM-score: 176)
    l-integrase_N (CL0469) Phage_int_SAM_1; Phage integrase, N-terminal SAM-like domain (PF02899; HMM-score: 92.4)
    Phage_int_SAM_5; Phage integrase SAM-like domain (PF13102; HMM-score: 28.2)
    Phage_int_SAM_4; Phage integrase, N-terminal SAM-like domain (PF13495; HMM-score: 24.7)
    HTH (CL0123) Linker_histone; linker histone H1 and H5 family (PF00538; HMM-score: 12.6)
    PepSY (CL0320) DUF3192; Protein of unknown function (DUF3192) (PF11399; HMM-score: 12.5)
    HTH (CL0123) HTH_38; Helix-turn-helix domain (PF13936; HMM-score: 11.8)

Structure, modifications & interactions[edit source | edit]

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

Localization[edit source | edit]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.97
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 0.01
    • Extracellular Score: 0.02
    • 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
    • Ymax: 0.104
    • Ymax_pos: 28
    • Cmax: 0.147
    • Cmax_pos: 28
    • Smax: 0.109
    • Smax_pos: 64
    • Smean: 0.067
    • D: 0.09
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • METIIEEYLRFIQIEKGLSSNTIGAYRRDLKKYQDYMTEHHISHIDFIDRQLIQECLGHLIDQGQSAKSIARFISTIRSFHQFAIREKYAAKDPTVLLDSPKYDKKLPDVLNVDEVLALLETPDLNKINGYRDRTMLELLYATGMRVSELIHLELENVNLIMGFVRVFGKGDKERIVPLGDAVIEYLTTYIETIRPQLLKKTVTEVLFLNMHGKPLSRQAIWKMIKQNGVKANIKKTLTPHTLRHSFATHLLENGADLRAVQEMLGHSDISTTQLYTHVSKSQIRKMYNQFHPRA

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. 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);3648-3661
    [PubMed:26224020] [WorldCat.org] [DOI] (I p)
  2. 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]