Prediction of ligand binding sites using homologous structures and conservation at CASP8
Open Access
- 1 January 2009
- journal article
- research article
- Published by Wiley in Proteins-Structure Function and Bioinformatics
- Vol. 77 (S9) , 147-151
- https://doi.org/10.1002/prot.22513
Abstract
The critical assessment of protein structure prediction experiment is a blind assessment of the prediction of protein structure and related topics including function prediction. We present our results in the function/binding site prediction category. Our approach to identify binding sites combined the use of the predicted structure of the targets with both residue conservation and the location of ligands bound to homologous structures. We obtained an average coverage of 83% and 56% accuracy. Analysis of our predictions suggests that overprediction reduces the accuracy obtained due to large areas of conservation around the binding site that do not bind the ligand. In some proteins such conserved residues may have a functional role. A server version of our method will soon be available. Proteins 2009.Keywords
Funding Information
- BBSRC (BB/F020481/1)
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