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Searching Post-translational Modifications in Cross-linking Mass Spectrometry Data

Zhou, C.; Lai, S.; DAI, S.; Zhao, P.; Li, N.; Yu, W.

2024-03-23 bioinformatics
10.1101/2024.03.20.585841 bioRxiv
Show abstract

Cross-linking mass spectrometry (XL-MS) is a technique for investigating protein-protein interactions (PPIs) and protein structures. In the realm of biology, post-translational modifications (PTMs) play a critical role in regulating PPIs and reshaping protein structures. However, the identification of PTMs in XL-MS data poses a great computational challenge and thus remains unexplored. In this study, we introduce SeaPIC, the first XL-MS tool that enables biologists to investigate PTMs in PPIs and protein structures. Our experiments demonstrate the successful identification of PTMs within cross-linked peptides, which were previously undiscovered.

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