Open Search Strategy for Inferring the Masses of Cross-Link Adducts on Proteins.

ABSTRACT: Development of new reagents for protein cross-linking is constantly ongoing. The chemical formulas for the linker adducts formed by these reagents are usually deduced from expert knowledge and then validated by mass spectrometry. Clearly, it would be more rigorous to infer the chemical compositions of the adducts directly from the data without any prior assumptions on their chemistries. Unfortunately, the analysis tools that are currently available to detect chemical modifications on linear peptides are not applicable to the case of two cross-linked peptides. Here, we show that an adaptation of the open search strategy that works on linear peptides can be used to characterize cross-link modifications in pairs of peptides. We benchmark our approach by correctly inferring the linker masses o

SUBMITTER: Slavin M 

PROVIDER: S-EPMC7883999 | biostudies-literature | 2020 Dec

REPOSITORIES: biostudies-literature