Patent Document ID: 20140349871
Application ID: 14283902
Patent Flag: 0

Claim One:
1. A method for identifying one or a plurality of interacting peptides within a biological system, comprising: (a) obtaining a population of cross-linked precursor peptides produced by digestion of a population of proteins cross-linked with a cleavable protein interaction reporter (PIR) cross-linker; (b) subjecting the population of cross-linked precursor peptides to mass spectrometry (MS) to produce precursor ions; (c) subjecting precursor ions with a charge state equal to or greater than a cutoff charge state to conditions under which the cleavable PIR cross-linker is cleaved, thereby producing a population of released peptides and cleaved reporter ions; and (d) analyzing the population of released peptides to identify interacting peptides, wherein identifying interacting peptides comprises identifying released peptides that, when added to the mass of the reporter ion, have a combined mass equal to the mass of the corresponding precursor ion.