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Structure-based design of model proteins

Banavar, Jayanth R and Cieplak, Marek and Maritan, Amos and Nadig, Gautham and Seno, Flavio (1998) Structure-based design of model proteins. In: Proteins: Structure, Function, and Genetics, 31 (1). pp. 10-20.


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A structure-based, sequence-design procedure is proposed in which one considers a set of decoy structures that compete significantly with the target structure in being low energy conformations. The decoy structures are chosen to have strong overlaps in contacts with the putative native state. The procedure allows the design of sequences with large and small stability gaps in a random-bond heteropolymer model in both two and three dimensions by an appropriate assignment of the contact energies to both the native and nonnative contacts. The design procedure is also successfully applied to the two-dimensional HP model.

Item Type: Journal Article
Publication: Proteins: Structure, Function, and Genetics
Publisher: Wiley-Liss, Inc
Additional Information: The copyright for this article belongs to Wiley-Liss, Inc.
Keywords: protein design;lattice model;protein stability
Department/Centre: Division of Biological Sciences > Molecular Biophysics Unit
Date Deposited: 08 Jun 2004
Last Modified: 19 Sep 2010 04:12
URI: http://eprints.iisc.ac.in/id/eprint/327

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