The application provides a method for identifying a breakable cross-linked
peptide segment, and the method comprises the following steps: S1, extracting characteristic double peaks with a
mass difference corresponding to a fixed
mass difference of a cross-linking agent in a spectrum, taking the
mass corresponding to the characteristic double peaks as the mass of an alpha
peptide segment, obtaining a candidate mass pair composed of the mass of the alpha
peptide segment and the mass of a
beta peptide segment based on the parent
ion mass corresponding to the breakable cross-linked peptide segment, and the mass of the
beta peptide segment is complementary to the mass of the alpha peptide segment; wherein the parent
ion mass is obtained by calibrating a primary spectrum of the breakable cross-linked peptide segment; S2, according to the candidate mass pair obtained in step S1, screening a plurality of candidate peptide segments respectively equal to the mass of the alpha peptide segment and the mass of the
beta peptide segment from a
protein database according to the mass of the alpha peptide segment and the mass of the beta peptide segment in the candidate mass pair, respectively forming paired candidate cross-linked peptide segments by combining all candidate peptide segments of the alpha peptide segment with all candidate peptide segments of the beta peptide segment to form a candidate cross-linked peptide segment set, matching and scoring the cross-linked peptide segments in the candidate cross-linked peptide segment set according to a preset fragment
ion, and selecting the cross-linked peptide segment with the highest
score.