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DOI 10.1007/s10822-020-00283-4

Медицинская библиотека · Journal of computer-aided molecular design · 2020

The SAMPL6 challenge on predicting octanol-water partition coefficients from EC-RISM theory.

Tielker Nicolas, Tomazic Daniel, Eberlein Lukas, Güssregen Stefan, Kast Stefan M

СтатьяПоддержка исследования: вне правительства СШАПеревод в очереди

Аннотация

Results are reported for octanol-water partition coefficients (log P) of the neutral states of drug-like molecules provided during the SAMPL6 (Statistical Assessment of Modeling of Proteins and Ligands) blind prediction challenge from applying the "embedded cluster reference interaction site model" (EC-RISM) as a solvation model for quantum-chemical calculations. Following the strategy outlined during earlier SAMPL challenges we first train 1- and 2-parameter water-free ("dry") and water-saturated ("wet") models for n-octanol solvation Gibbs energies with respect to experimental values from the "Minnesota Solvation Database" (MNSOL), yielding a root mean square error (RMSE) of 1.5 kcal mol-1 for the best-performing 2-parameter wet model, while the optimal water model developed for the pKa part of the SAMPL6 challenge is kept unchanged (RMSE 1.6 kcal mol-1 for neutral compounds from a model trained on both neutral and ionic species). Applying these models to the blind prediction set yields a log P RMSE of less than 0.5 for our best model (2-parameters, wet). Further analysis of our results reveals that a single compound is responsible for most of the error, SM15, without which the RMSE drops to 0.2. Since this is the only compound in the challenge dataset with a hydroxyl group we investigate other alcohols for which Gibbs energy of solvation data for both water and n-octanol are available in the MNSOL database to demonstrate a systematic cause of error and to discuss strategies for improvement.

Для цитирования: Tielker Nicolas, Tomazic Daniel, Eberlein Lukas, Güssregen Stefan, Kast Stefan M. The SAMPL6 challenge on predicting octanol-water partition coefficients from EC-RISM theory.. Journal of computer-aided molecular design. 2020. DOI: 10.1007/s10822-020-00283-4.

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