Inferring Protein-Protein Interacting Sites Using Residue Conservation and Evolutionary Information

Author(s): Bing Wang, Hau San Wong, De-Shuang Huang.

Journal Name: Protein & Peptide Letters

Volume 13 , Issue 10 , 2006

Abstract:

This paper proposes a novel method using protein residue conservation and evolution information, i.e., spatial sequence profile, sequence information entropy and evolution rate, to infer protein binding sites. Some predictors based on support vector machines (SVMs) algorithm are constructed to predict the role of surface residues in protein-protein interface. By combining protein residue characters, the prediction performance can be improved obviously. We then made use of the predicted labels of neighbor residues to improve the performance of the predictors. The efficiency and the effectiveness of our proposed approach are verified by its better prediction performance based on a non-redundant data set of heterodimers.

Keywords: Protein-protein interacting sites, conservation and evolution information, support vector machines, spatial neighboring residue

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Article Details

VOLUME: 13
ISSUE: 10
Year: 2006
Page: [999 - 1005]
Pages: 7
DOI: 10.2174/092986606778777498
Price: $58

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