title: Chemical dephosphorylation for identification of multiply phosphorylated peptides and phosphorylation site determination.
abstract: We have developed a novel strategy to improve the efficiency of identification of multiply phosphorylated peptides isolated by hydroxy acid modified metal oxide chromatography (HAMMOC). This strategy consists of alkali-induced chemical dephosphorylation (beta-elimination reaction) of phosphopeptides isolated by HAMMOC prior to analysis by liquid chromatography/mass spectrometry (LC/MS). This approach identified 1.9-fold more multiply phosphorylated peptides than the conventional approach without beta-elimination from a digested mixture of three standard phosphoproteins. In addition, the accuracy of phosphorylation site determination in synthetic phosphopeptides was significantly improved. Finally, we applied this approach to a cell lysate. By combining this dephosphorylation approach with the conventional approach, we successfully identified 1649 unique phosphopeptides, including 325 multiply phosphorylated phosphopeptides, from 200 microg of cultured Arabidopsis cells. These results indicate that chemical dephosphorylation prior to LC/MS analysis increases the efficiency of identification of multiply phosphorylated peptides, as well as the accuracy of phosphorylation site determination.
authors.affiliation: Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997-0017, Japan.
authors.forename: Yutaka
authors.initials: Y
authors.lastname: Kyono
authors.forename: Naoyuki
authors.initials: N
authors.lastname: Sugiyama
authors.forename: Masaru
authors.initials: M
authors.lastname: Tomita
authors.forename: Yasushi
authors.initials: Y
authors.lastname: Ishihama
mesh_terms: D017360:Arabidopsis / Q000737:chemistry; D029681:Arabidopsis Proteins / Q000737:chemistry / Q000302:isolation & purification; D002853:Chromatography, Liquid; D013058:Mass Spectrometry; D015394:Molecular Structure; D010748:Phosphopeptides / Q000737:chemistry* / Q000302:isolation & purification; D010750:Phosphoproteins / Q000737:chemistry; D010766:Phosphorylation
chemical_list: D029681:Arabidopsis Proteins; D010748:Phosphopeptides; D010750:Phosphoproteins