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The mechanism of peptide “b” fragment formation in collision-induced dissociation (CID) is generally understood as a nucleophilic attack from a carbonyl oxygen onto the electron deficient carbon of the dissociating amide bond forming a five-membered oxazolone ring structure. Nonetheless, other nucleophiles, such as the N-terminus and side-chain moieties (e.g., imidazole, guanidine), can in principle...
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