Structure-based validation can drastically underestimate error rate in proteome-wide cross-linking mass spectrometry studies.

ABSTRACT: Thorough quality assessment of novel interactions identified by proteome-wide cross-linking mass spectrometry (XL-MS) studies is critical. Almost all current XL-MS studies have validated cross-links against known three-dimensional structures of representative protein complexes. Here, we provide theoretical and experimental evidence demonstrating that this approach can drastically underestimate error rates for proteome-wide XL-MS datasets, and propose a comprehensive set of four data-quality metrics to address this issue.

SUBMITTER: Yugandhar K 

PROVIDER: S-EPMC7534832 | biostudies-literature | 2020 Oct

REPOSITORIES: biostudies-literature