Journal of Proteomics & Bioinformatics
Open Access
ISSN: 0974-276X
+44 1223 790975
ISSN: 0974-276X
+44 1223 790975
Bas van Breukelen
England
Research Article
Targeted SCX Based Peptide Fractionation for Optimal Sequencing by Collision Induced, and Electron Transfer Dissociation
Author(s): Henk W.P. van den Toorn, Shabaz Mohammed, Joost W. Gouw, Bas van Breukelen and Albert J.R. HeckHenk W.P. van den Toorn, Shabaz Mohammed, Joost W. Gouw, Bas van Breukelen and Albert J.R. Heck
Electron transfer dissociation (ETD) of peptide ions has been introduced as a tool for mass spectrometry based peptide sequencing, complementary to the commonly used collision induced dissociation (CID). It has been proposed that ETD may have better performance than CID for more highly charged and/or larger peptides. Here, we compare the performance of ETD and CID on data generated in a large-scale proteomics experiment. First, tryptic proteolytic peptides of Drosophila melanogaster oocytes were off-line separated based on their insolution net charge state using strong cation exchange chromatography (SCX), followed by an on-line reversephase (RP) liquid chromatography separation coupled to an ion trap mass spectrometer with ETD capabilities. The mass spectrometer selected MS peaks were subjected to both ETD and CID thus allowing a fair comparison. Around 2300 peptides.. View More»
DOI:
10.4172/jpb.1000047