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Free keywords:
Computational Biology, Cross-Linking Reagents, Databases, Protein, Escherichia coli, Mass Spectrometry, Models, Molecular, Peptides, Protein Conformation, Sensitivity and Specificity
Abstract:
We describe a method to identify cross-linked peptides from complex samples and large protein sequence databases by combining isotopically tagged cross-linkers, chromatographic enrichment, targeted proteomics and a new search engine called xQuest. This software reduces the search space by an upstream candidate-peptide search before the recombination step. We showed that xQuest can identify cross-linked peptides from a total Escherichia coli lysate with an unrestricted database search.
