Journal Article

Optimal design of thermally stable proteins

Ryan M. Bannen, Vanitha Suresh, George N. Phillips, Stephen J. Wright and Julie C. Mitchell

in Bioinformatics

Volume 24, issue 20, pages 2339-2343
Published in print October 2008 | ISSN: 1367-4803
Published online August 2008 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btn450

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Motivation: For many biotechnological purposes, it is desirable to redesign proteins to be more structurally and functionally stable at higher temperatures. For example, chemical reactions are intrinsically faster at higher temperatures, so using enzymes that are stable at higher temperatures would lead to more efficient industrial processes. We describe an innovative and computationally efficient method called Improved Configurational Entropy (ICE), which can be used to redesign a protein to be more thermally stable (i.e. stable at high temperatures). This can be accomplished by systematically modifying the amino acid sequence via local structural entropy (LSE) minimization. The minimization problem is modeled as a shortest path problem in an acyclic graph with nonnegative weights and is solved efficiently using Dijkstra's method.

Contact: mitchell@biochem.wisc.edu

Journal Article.  3973 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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