Document Detail

Relative specificities of water and ammonia losses from backbone fragments in collision-activated dissociation.
MedLine Citation:
PMID:  17503798     Owner:  NLM     Status:  MEDLINE    
Analysis of a database containing over 20,000 high-resolution collision-activation mass spectra of tryptic peptide dications was employed to study the relative specificity of neutral losses from backbone fragments. The high resolution of the FTMS instrument allowed for the first time the first isotope of the water loss and the monoisotope of the ammonia loss to be distinguished. Contrary to a popular belief, water losses from y' ions are not specific enough to rely upon for detecting the presence of amino acids with oxygen in the side chains. At the same time, ammonia loss from b ions is sufficiently specific (>95%) to detect the presence of amino acids Gln, Asn, His, Lys, and Arg. This feature will be useful for de novo algorithms for high-resolution MS data. Clear trends were observed when the effect of amino acids proximate to the cleavage site on the rate of loss formation was studied. These trends turned out to be different for losses from b and y ions.
Mikhail M Savitski; Frank Kjeldsen; Michael L Nielsen; Roman A Zubarev
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Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't     Date:  2007-05-16
Journal Detail:
Title:  Journal of proteome research     Volume:  6     ISSN:  1535-3893     ISO Abbreviation:  J. Proteome Res.     Publication Date:  2007 Jul 
Date Detail:
Created Date:  2007-07-06     Completed Date:  2007-08-30     Revised Date:  -    
Medline Journal Info:
Nlm Unique ID:  101128775     Medline TA:  J Proteome Res     Country:  United States    
Other Details:
Languages:  eng     Pagination:  2669-73     Citation Subset:  IM    
Laboratory for Biological and Medical Mass Spectrometry, Uppsala University, Box 583, Uppsala S-751 23, Sweden.
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MeSH Terms
Amino Acid Sequence
Amino Acids / chemistry
Ammonia / chemistry*
Databases, Protein
Fourier Analysis
Mass Spectrometry*
Molecular Sequence Data
Peptides / chemistry*
Sequence Analysis, Protein / methods*
Trypsin / chemistry
Water / chemistry*
Reg. No./Substance:
0/Amino Acids; 0/Peptides; 7664-41-7/Ammonia; 7732-18-5/Water; EC

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine

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