Statistical analysis of computational docking of large compound data bases to distinct protein binding sites

The results of 16 docking simulations with rigid receptor sites and flexible ligands (∼60,000 compounds in each case) are statistically analyzed and compared. Different combinations of binding sites, scoring functions, and compound collections are used in these calculations. The docking scores are not randomly distributed over the scoring range; they follow Gaussian distributions (regardless of the binding sites), scoring functions, or screened compounds. If the docking sites are small, the Gaussian distributions are positively skewed. Peaks of the Gaussian distributions are populated with compounds having similar scores but different sizes and binding modes. These findings have implications for compound selection via computational docking. ©1999 John Wiley & Sons, Inc. J Comput Chem 20: 1634–1643, 1999

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