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Updated: Mar 20, 2026

A Protocol for Functional Assessment of Whole-Protein Saturation Mutagenesis Libraries Utilizing High-Throughput Sequencing
Published on: July 3, 2016
The Parasol Protocol for computational mutagenesis
P G A Aronica1, C Verma2, B Popovic3
1Department of Chemistry and Institute of Chemical Biology, Imperial College London, South Kensington Campus, Exhibition Road, London SW7 2AZ, UK.
Abstract:
To aid in the discovery and development of peptides and proteins as therapeutic agents, a virtual screen can be used to predict trends and direct workflow. We have developed the Parasol Protocol, a dynamic method implemented using the AMBER MD package, for computational site-directed mutagenesis. This tool can mutate between any pair of amino acids in a computationally expedient, automated manner. To demonstrate the potential of this methodology, we have employed the protocol to investigate a test case involving stapled peptides, and have demonstrated good agreement with experiment.
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