Cleavable crosslinkers redefined by novel MS3-trigger algorithm

Kolbowski, L.; Fischer, L.; Rappsilber, J.

doi:10.1101/2023.01.26.525676

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bioRxiv · 10.1101/2023.01.26.525676

Cleavable crosslinkers redefined by novel MS3-trigger algorithm

Kolbowski, L.·Fischer, L.·Rappsilber, J.

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Abstract

Crosslinking MS is currently transitioning from a routine tool in structural biology to enabling structural systems biology. MS-cleavable crosslinkers could substantially reduce the associated search space expansion by allowing an MS3-based approach for identifying crosslinked peptides. However, MS2-based approaches currently outperform approaches utilising MS3. We show here that MS3-trigger sensitivity and specificity were hampered algorithmically. Our four-step MS3-trigger algorithm greatly outperformed currently employed methods and comes close to reaching the theoretical limit.

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Kolbowski, L., Fischer, L., Rappsilber, J.. 2023-01-26. Cleavable crosslinkers redefined by novel MS3-trigger algorithm. https://doi.org/10.1101/2023.01.26.525676

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