ArticleJournal of the American Society for Mass Spectrometry2015
ETD Outperforms CID and HCD in the Analysis of the Ubiquitylated Proteome.
Article in Journal of the American Society for Mass Spectrometry, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed.
- Current Methods of Post-Translational Modification Analysis and Their Applications in Blood Cancers.Cancers · 2021Review
- Ubiquitomics: An Overview and Future.Biomolecules · 2020Review
- The Role of Electron Transfer Dissociation in Modern Proteomics.Analytical chemistry · 2018Review
- Capzimin is a potent and specific inhibitor of proteasome isopeptidase Rpn11.Nature chemical biology · 2017Article
- Ribosomal proteins produced in excess are degraded by the ubiquitin-proteasome system.Molecular biology of the cell · 2016Article
- A conserved quality-control pathway that mediates degradation of unassembled ribosomal proteins.eLife · 2016Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
Comprehensive analysis of the ubiquitylome is a prerequisite to fully understand the regulatory role of ubiquitylation. However, the impact of key mass spectrometry parameters on ubiquitylome analyses has not been fully explored. In this study, we show that using electron transfer dissociation (ETD) fragmentation, either exclusively or as part of a decision tree method, leads to ca. 2-fold increase in ubiquitylation site identifications in K-ε-GG peptide-enriched samples over traditional collisional-induced dissociation (CID) or higher-energy collision dissociation (HCD) methods. Precursor ions were predominantly observed as 3+ charged species or higher and in a mass range 300-1200 m/z. N-ethylmaleimide was used as an alkylating agent to reduce false positive identifications resulting from overalkylation with halo-acetamides. These results demonstrate that the application of ETD fragmentation, in addition to narrowing the mass range and using N-ethylmaleimide yields more high-confidence ubiquitylation site identification than conventional CID and HCD analysis.
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Registered trials
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