Ellingson B.A.,OpenEye Scientific Sofware |
Geballe M.T.,OpenEye Scientific Sofware |
Wlodek S.,OpenEye Scientific Sofware |
Bayly C.I.,OpenEye Scientific Sofware |
And 2 more authors.
Journal of Computer-Aided Molecular Design | Year: 2014
Several submissions for the SAMPL4 hydration free energy set were calculated using OpenEye tools, including many that were among the top performing submissions. All of our best submissions used AM1BCC charges and Poisson-Boltzmann solvation. Three submissions used a single conformer for calculating the hydration free energy and all performed very well with mean unsigned errors ranging from 0.94 to 1.08 kcal/mol. These calculations were very fast, only requiring 0.5-2.0 s per molecule. We observed that our two single-conformer methodologies have different types of failure cases and that these differences could be exploited for determining when the methods are likely to have substantial errors. © 2014 The Author(s).