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Rapid Commun Mass Spectrom. 2005;19(21):3002-6.

Simple modification of a protein database for mass spectral identification of N-linked glycopeptides.

Author information

1
Complex Carbohydrate Research Center, University of Georgia, 315 Riverbend Road, Athens, GA 30602-4712, USA. jatwood@chem.uga.edu

Abstract

We describe an algorithm which modifies a protein database such that during a database search deamidation is limited to asparagines strictly contained within the N-glycosylation consensus sequence. The modified database was evaluated using a dataset created from the shotgun proteomic analysis of N-linked glycopeptides from human blood serum. We demonstrate that the application of the modified database eliminates incorrect glycopeptide assignments, reduces the peptide false-discovery rate, and eliminates the need for manual validation of glycopeptide identifications.

PMID:
16196021
DOI:
10.1002/rcm.2162
[Indexed for MEDLINE]

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