国家神经系统疾病临床医学研究中心数据管理与共享系统

Data Management And Sharing System of China National Clinical Research Center for Neurological Diseases

《国家中心数据管理与共享系统操作说明书 —— 研究者部分》

Statistical characterization of HCD fragmentation patterns of tryptic peptides on an LTQ Orbitrap Velos mass spectrometer

第一作者：Shao Chen, Zhang Yang

通讯作者：Sun Wei

基本信息

2014-06-16

已发表文章

发表杂志：Journal of Proteomics

发表类型: Research Article

影响因子(IF): 4.044

PMID: 24981973 Pubmed原文链接 全文下载

主要研究背景及目的

方法

In this study, b and y ion fragmentation patterns and residue-specific cleavage effects in HCD mode were statistically characterized on a LTQ Orbitrap Velos mass spectrometer. We compared HCD and CID spectra collected in an Orbitrap for the same doubly and triply charged tryptic peptides.

结论

These results will assist with the development of database search engines and the design of proper transitions for targeted proteomic analysis.

主要结果

Our analytical results revealed novel statistical features of HCD spectra. The intensity of y ions reached a maximum in the 60–70% and 40–50% relative mass bins of HCD spectra from doubly and triply charged peptides, respectively. The HCD mode showed a slight preference for generating y ions with lower charges than did CID mode. Singly charged fragment ions dominated the five fragment ions with the highest intensity in HCD spectra. Hydrophobic residues for b ions were the primary differences in cleavage selectivity between the two modes, while residues for y ions showed a similar cleavage preference.