We propose an FFT-based algorithm to calculate ASP (Atomic Solvation Parameters) scores of protein complexes and develop an ASP-based protein-protein docking method (ASPDock). Comparisons with other state-of-the-art docking algorithms showed that ASP score indeed gives higher success rate than the pure shape complementarity score of FTDock. ASPDock is more accurate and physical than the pure shape complementarity in describing the feature of protein docking. ASPDock also performed well in CAPRI (Critical Assessment of Prediction of Interactions) rounds 18 and 19.
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Lin Li, Dachuan Guo, Yangyu Huang, Shiyong Liu*, Yi Xiao* ASPDock: protein-protein docking algorithm using atomic solvation parameters model (BMC Bioinformatics 2011, 12:36)
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