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Long Proteins with Unique Optimal Foldings in the H-P Model

Oswin Aichholzer·David Bremner·Erik D. Demaine·Henk Meijer·Vera Sacristán·Michael Soss
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Abstract

It is widely accepted that (1) the natural or folded state of proteins is a global energy minimum, and (2) in most cases proteins fold to a unique state determined by their amino acid sequence. The H-P (hydrophobic-hydrophilic) model is a simple combinatorial model designed to answer qualitative questions about the protein folding process. In this paper we consider a problem suggested by Brian Hayes in 1998: what proteins in the two-dimensional H-P model have unique optimal (minimum energy) foldings? In particular, we prove that there are closed chains of monomers (amino acids) with this property for all (even) lengths; and that there are open monomer chains with this property for all lengths divisible by four.

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Oswin Aichholzer, David Bremner, Erik D. Demaine, Henk Meijer, Vera Sacristán, Michael Soss. 2002-01-21. Long Proteins with Unique Optimal Foldings in the H-P Model. https://arxiv.org/abs/cs/0201018

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