The Use of Automated Software for LC/MS/MS Analysis
The analysis of MS/MS spectra is a time consuming, labor
intensive activity. In proteomics, the peptide sequence is identified
from a large database using data dependent acquisition and analysis.
However, in the analysis of a well characterized therapeutic, there is
a known sequence and a well defined list of modifications. This
presents a different set of issues than those in proteomics. We utilize
a software package and methodology which automates MS/MS sequencing and
analysis of biotherapeutics. A monoclonal antibody was fully
characterized two enzyme digestion and analysis by MS/MS. The software
demonstrates the ability to identify peptides modified by deamidation,
oxidation, lysine variation etc
The information obtained from the
automated system provides in-depth analysis and characterization
information about the antibody.