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arXiv · 2111.12987

Native state of natural proteins optimises local entropy

Matteo Negri·Guido Tiana·Riccardo Zecchina
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Abstract

The differing ability of polypeptide conformations to act as the native state of proteins has long been rationalized in terms of differing kinetic accessibility or thermodynamic stability. Building on the successful applications of physical concepts and sampling algorithms recently introduced in the study of disordered systems, in particular artificial neural networks, we quantitatively explore how well a quantity known as the local entropy describes the native state of model proteins. In lattice models and all-atom representations of proteins, we are able to efficiently sample high local entropy states and to provide a proof of concept of enhanced stability and folding rate. Our methods are based on simple and general statistical--mechanics arguments, and thus we expect that they are of very general use.

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Matteo Negri, Guido Tiana, Riccardo Zecchina. 2021-11-25. Native state of natural proteins optimises local entropy. https://arxiv.org/abs/2111.12987

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