Protein evolution as a complex system

Barnabas Gall; Sacha B. Pulsford; Dana S. Matthews; Matthew A. Spence; Joe A. Kaczmarski; John Chen; Mahakaran Sandhu; Eric A. Stone; James Nichols; Colin J. Jackson

doi:10.1038/s41589-025-01977-2

Protein evolution as a complex system

Barnabas Gall, Sacha B. Pulsford, Dana S. Matthews, Matthew A. Spence, Joe A. Kaczmarski, John Chen, Mahakaran Sandhu, Eric A. Stone, James Nichols, Colin J. Jackson

Research output: Contribution to journal › Editorial › peer-review

Abstract

Viewing protein evolution through the lens of complex systems theory may offer new insights into the principles driving biological adaptation. In this Comment we explore how characteristics such as sensitivity to initial conditions and self-organization are observed in protein evolution and discuss how machine learning can help model these dynamics to guide protein engineering.

Original language	English
Pages (from-to)	1293-1299
Number of pages	7
Journal	Nature Chemical Biology
Volume	21
Issue number	9
Early online date	15 Aug 2025
DOIs	https://doi.org/10.1038/s41589-025-01977-2
Publication status	Published - Sept 2025

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AU - Chen, John

AU - Sandhu, Mahakaran

AU - Stone, Eric A.

AU - Nichols, James

AU - Jackson, Colin J.

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Protein evolution as a complex system

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