Abstract
Phosphopeptide identification and phosphorylation site localization are crucial aspects of many biological studies. Furthermore, multiple phosphorylations of peptides make site localization even more difficult. We developed a probability-based method to unambiguously determine phosphorylation sites within phosphopeptides using MS2/3 pair information. A comparison test was performed with SEQUEST and MASCOT predictions using a spectral data set from a synthetic doubly phosphorylated peptide, and the results showed that PhosphoScan analysis yielded a 63% phosphopeptide localization improvement compared with SEQUEST and a 57% improvement compared with MASCOT.
| Original language | English (US) |
|---|---|
| Pages (from-to) | 2803-2811 |
| Number of pages | 9 |
| Journal | Journal of Proteome Research |
| Volume | 7 |
| Issue number | 7 |
| DOIs | |
| State | Published - Jul 2008 |
| Externally published | Yes |
Keywords
- MS2
- MS3
- Nl (neutral loss)
- PTM (post translational modification)
- Phosphorylation
- Protein identification
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