The invention discloses a secondary
protein mass spectrum identification method based on
mass-to-charge ratio error recognition capability. The method comprises the following steps: virtualizing an enzymolysis
protein databank sequence, establishing
a peptide fragment databank and
a peptide fragment databank index for each
peptide fragment after being subjected to enzymolysis according to the
mass number of the
peptide fragment, finding out each candidate
peptide fragment which meets the requirement in the established
peptide fragment databank according to the
mass number after charges of mother ions are removed in an experiment spectrum to be analyzed, performing isotopic peak removal and selecting an effective peak for
processing, generating an experiment mark spectrum which meets a candidate
peptide fragment theoretic spectrum, counting mass error information of different ions, calculating the mass-to-charge ratio error recognition capabilities of the different ions in different areas, scoring the candidate peptide fragments based on the mass-to-charge ratio error recognition capabilities, selecting the
peptide fragment with the highest
score as the identification result of the experiment spectrum, and performing the overall mass control on the identification result. The numbers of effective spectrums and peptide fragments identified by using the method are both greater than that of a conventional
algorithm, the peak can be dynamically selected, and the operation speed is high.