NDLI: Characterizing Peptide Neutral Losses Induced by Negative Electron-Transfer Dissociation (NETD)

Content Provider	Springer Nature Link
Author	Rumachik, Neil G. McAlister, Graeme C. Russell, Jason D. Bailey, Derek J. Wenger, Craig D. Coon, Joshua J.
Copyright Year	2012
Abstract	We implemented negative electron-transfer dissociation (NETD) on a hybrid ion trap/Orbitrap mass spectrometer to conduct ion/ion reactions using peptide anions and radical reagent cations. In addition to sequence-informative ladders of a•- and x-type fragment ions, NETD generated intense neutral loss peaks corresponding to the entire or partial side-chain cleavage from amino acids constituting a given peptide. Thus, a critical step towards the characterization of this recently introduced fragmentation technique is a systematic study of synthetic peptides to identify common neutral losses and preferential fragmentation pathways. Examining 46 synthetic peptides with high mass accuracy and high resolution analysis permitted facile determination of the chemical composition of each neutral loss. We identified 19 unique neutral losses from 14 amino acids and three modified amino acids, and assessed the specificity and sensitivity of each neutral loss using a database of 1542 confidently identified peptides generated from NETD shotgun experiments employing high-pH separations and negative electrospray ionization. As residue-specific neutral losses indicate the presence of certain amino acids, we determined that many neutral losses have potential diagnostic utility. We envision this catalogue of neutral losses being incorporated into database search algorithms to improve peptide identification specificity and to further advance characterization of the acidic proteome.
Starting Page	718
Ending Page	727
Page Count	10
File Format	PDF
ISSN	10440305
Journal	Journal of The American Society for Mass Spectrometry
Volume Number	23
Issue Number	4
e-ISSN	18791123
Language	English
Publisher	Springer-Verlag
Publisher Date	2012-01-31
Publisher Institution	The American Society for Mass Spectrometry
Publisher Place	New York
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	Negative electron transfer dissociation Peptide neutral losses Peptide dissociation Ion-ion reactions Electron transfer dissociation Negative electrospray ionization FT MS/MS Proteomics Bioinformatics Organic Chemistry Analytical Chemistry Biotechnology
Content Type	Text
Resource Type	Article
Subject	Spectroscopy Structural Biology

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