Introduction

Tandem mass spectrometry (MS/MS) allows for the rapid identification of many types of post-translational modifications (PTMs), especially those that can be detected by a diagnostic mass shift in one or more peptide fragment ions (for example, phosphorylation). But some PTMs (for example, SUMOs and other ubiquitin-like modifiers) themselves produce multiple fragment ions; combined with fragments from the modified target peptide, a complex overlapping fragmentation pattern is thus generated, which is uninterpretable by standard peptide sequencing software. Here we introduce SUMmOn, an automated pattern recognition tool that detects diagnostic PTM fragment ion series within complex MS/MS spectra, to identify modified peptides and modification sites within these peptides. Using SUMmOn, we demonstrate for the first time that human SUMO-1 multimerizes in vitro primarily via three N-terminal lysines, Lys7, Lys16 and Lys17. Notably, our method is theoretically applicable to any type of modification or chemical moiety generating a unique fragment ion pattern.

Publications

  1. Automated identification of SUMOylation sites using mass spectrometry and SUMmOn pattern recognition software.
    Cite this
    Pedrioli PG, Raught B, Zhang XD, Rogers R, Aitchison J, Matunis M, Aebersold R, 2006-07-01 - Nature methods

Credits

  1. Patrick G A Pedrioli
    Developer

    Institute for Systems Biology, 1441 N. 34th Street, United States of America

  2. Brian Raught
    Developer

  3. Xiang-Dong Zhang
    Developer

  4. Richard Rogers
    Developer

  5. John Aitchison
    Developer

  6. Michael Matunis
    Developer

  7. Ruedi Aebersold
    Investigator

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Summary
AccessionBT001597
Tool TypeApplication
Category
PlatformsLinux/Unix
TechnologiesC++
User InterfaceTerminal Command Line
Download Count0
Submitted ByRuedi Aebersold