Get access

Application of a fast sorting algorithm to the assignment of mass spectrometric cross-linking data

Authors

  • Evgeniy V. Petrotchenko,

    1. University of Victoria-Genome British Columbia Proteomics Centre, Vancouver Island Technology Park, Victoria, BC, Canada
    Search for more papers by this author
  • Christoph H. Borchers

    Corresponding author
    1. University of Victoria-Genome British Columbia Proteomics Centre, Vancouver Island Technology Park, Victoria, BC, Canada
    2. Department of Biochemistry & Microbiology, University of Victoria, Victoria, BC, Canada
    • Correspondence: Dr. Christoph H. Borchers, University of Victoria-Genome British Columbia Proteomics Centre, Vancouver Island Technology Park, #3101-4464 Markham Street, Victoria, BC V8Z 7X8, Canada

      E-mail: christoph@proteincentre.com

      Fax: +1-250-483-3238

    Search for more papers by this author

Abstract

Cross-linking combined with MS involves enzymatic digestion of cross-linked proteins and identifying cross-linked peptides. Assignment of cross-linked peptide masses requires a search of all possible binary combinations of peptides from the cross-linked proteins’ sequences, which becomes impractical with increasing complexity of the protein system and/or if digestion enzyme specificity is relaxed. Here, we describe the application of a fast sorting algorithm to search large sequence databases for cross-linked peptide assignments based on mass. This same algorithm has been used previously for assigning disulfide-bridged peptides (Choi et al., [4]), but has not previously been applied to cross-linking studies.

Get access to the full text of this article

Ancillary