DMCA
An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database (1994)
| Venue: | J. Am. Soc. Mass Spectrom |
| Citations: | 944 - 19 self |
BibTeX
@ARTICLE{Eng94anapproach,
author = {Jimmy K. Eng and Ashley L. Mccormack and John R. Yates},
title = {An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database},
journal = {J. Am. Soc. Mass Spectrom},
year = {1994},
pages = {1579--1583}
}
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Abstract
A method to correlate the uninterpreted tandem mass spectra of peptides produced under low energy (lo-50 eV) collision conditions with amino acid sequences in the Genpept database has been developed. In this method the protein database is searched to identify linear amino acid sequences within a mass tolerance of * 1 u of the precursor ion molecular weight. A cross-correlation function is then used to provide a measurement of similarity between the mass-to-charge ratios for the fragment ions predicted from amino acid sequences obtained from the database and the fragment ions observed in the tandem mass spectrum. In general, a difference greater than 0.1 between the normalized cross-correlation functions of the first- and second-ranked search results indicates a successfol match between sequence and spectrum. Searches of species-specific protein databases with tandem mass spectra acquired from peptides obtained from the enzymatically digested total proteins of E. coli and S. cerevisiae cells allowed matchmg of the spectra to amino acid sequences within proteins of these organisms. The approach described in this manuscript provides a convenient method to interpret tandem mass spectra with known sequences in a protein database,
Keyphrases
protein database amino acid sequence tandem mass spectral data tandem mass spectrum fragment ion convenient method normalized cross-correlation function lo-50 ev acid sequence genpept database species-specific protein linear amino acid sequence uninterpreted tandem mass spectrum precursor ion molecular weight known sequence mass-to-charge ratio low energy second-ranked search result collision condition cerevisiae cell digested total protein mass tolerance cross-correlation function successfol match
