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Fragmentation schema for Lys-directed non-cleavable (A) and cleavable (B) crosslinkers. Tryptic peptide examples are for illustration only. Increased backbone fragmentation typically observed for linear peptides is indicated. Left spurs on hashes represent observed “B-ions” and right spurs are “Y-ions”. The red circle represents the CID-cleavable crosslinking moiety. Only two of the four possible products are shown for MS3 in B.
