ECL 3.0: a sensitive peptide identification tool for cross-linking mass spectrometry data analysis.

ABSTRACT:

Background

Cross-linking mass spectrometry (XL-MS) is a powerful technique for detecting protein-protein interactions (PPIs) and modeling protein structures in a high-throughput manner. In XL-MS experiments, proteins are cross-linked by a chemical reagent (namely cross-linker), fragmented, and then fed into a tandem mass spectrum (MS/MS). Cross-linkers are either cleavable or non-cleavable, and each type requires distinct data analysis tools. However, both types of cross-linkers suffer from imbalanced fragmentation efficiency, resulting in a large number of unidentifiable spectra that hinder the discovery of PPIs and protein conformations. To address this challenge, researchers have sought to improve the sensitivity of XL-MS through invention of novel cross-linking reagents, optimi

SUBMITTER: Zhou C 

PROVIDER: S-EPMC10510197 | biostudies-literature | 2023 Sep

REPOSITORIES: biostudies-literature