Abstract
Background: Recent advances in proteomics methodologies allow for high throughput pro-filing of proteolytic cleavage events. The resulting substrate peptide distributions provide deep insights in the underlying macromolecular recognition events, as determinants of biomolecular specificity identi-fied by proteomics approaches may be compared to structure-based analysis of corresponding protein-protein interfaces.Method: Here, we present an overview of experimental and computational methodologies and tools ap-plied in the area and provide an outlook beyond the protein class of proteases.Results and Conclusion: We discuss here future potential, synergies and needs of the emerging over-lap disciplines of proteomics and structure-based modelling.
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