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Mutational Basin-Hopping: Combined Structure and Sequence Optimization for Biomolecules.

Accepted version
Peer-reviewed

Type

Article

Change log

Authors

Abstract

The study of energy landscapes has led to a good understanding of how and why proteins and nucleic acids adopt their native structure. Through evolution, sequences have adapted until they exhibit a strongly funneled energy landscape, stabilizing the native fold. Design of artificial biomolecules faces the challenge of creating similar stable, minimally frustrated, and functional sequences. Here we present a biminimization approach, mutational basin-hopping, in which we simultaneously use global optimization to optimize the energy and a target function describing a desired property of the system. This optimization of structure and sequence is a generalized basin-hopping method and produces an efficient design process, which can target properties such as binding affinity or solubility.

Description

Keywords

Algorithms, Ligands, Models, Chemical, Models, Molecular, Mutation, Neurophysins, Oxytocin, Protein Folding, Proteins, Thermodynamics, Vasopressins

Journal Title

J Phys Chem Lett

Conference Name

Journal ISSN

1948-7185
1948-7185

Volume Title

9

Publisher

American Chemical Society (ACS)
Sponsorship
EPSRC (1652488)
Engineering and Physical Sciences Research Council (EP/N035003/1)