Patch prediction of protein interaction sites: Validation of a scoring function for an online server

Jones, Susan and Mukarami, Yoichi (2007) Patch prediction of protein interaction sites: Validation of a scoring function for an online server. In: 1st International Conference on Bioinformatics Research and Development, BIRD 2007; Berlin; 12 March 2007 through 14 March 2007; Code 69961.

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Abstract

An online protein interaction server has been designed and implemented to make predictions for 256 nonhomologous protein-protein interaction sites using patch analysis. Predictions of interactions sites are made using a scoring function that ranks four parameters, Solvation Potential, Hydrophobicity, Accessible Surface Area and Residue Interface Propensity, for overlapping patches of surface residues. Using the server, correct predictions were made for 85% of an original hand curated data set of 28 homodimers and for 65% of a new dataset of 256 homodimeric proteins. This is an increased prediction rate over the original algorithm, and proves that the method is valid for a larger set of proteins that includes more diverse interaction sites. In addition, a number of proteins for which predictions are categorized as incorrect, are shown to have alternative protein interaction sites on their surfaces

Item Type: Conference or Workshop Item (Paper)
Schools and Departments: School of Life Sciences > Biochemistry
Depositing User: Sue Jones
Date Deposited: 06 Feb 2012 20:10
Last Modified: 23 Mar 2012 08:55
URI: http://sro.sussex.ac.uk/id/eprint/24490
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