Truchon Jean-François, Pettitt B Montgomery, Labute Paul
Chemical Computing Group Inc. , 1010 Sherbrooke Street West, Suite 910, Montréal, Québec, Canada , H3A 2R7.
Biochemistry and Molecular Biology, University of Texas Medical Branch , Galveston, Texas 77555, United States of America.
J Chem Theory Comput. 2014 Mar 11;10(3):934-941. doi: 10.1021/ct4009359. Epub 2014 Jan 14.
We show that an Ng bridge function modified version of the three-dimensional reference interaction site model (3D-RISM-NgB) solvation free energy method can accurately predict the hydration free energy (HFE) of a set of 504 organic molecules. To achieve this, a single unique constant parameter was adjusted to the computed HFE of single atom Lennard-Jones solutes. It is shown that 3D-RISM is relatively accurate at predicting the electrostatic component of the HFE without correction but requires a modification of the nonpolar contribution that originates in the formation of the cavity created by the solute in water. We use a free energy functional with the Ng scaling of the direct correlation function [Ng, K. C. , , 2680]. This produces a rapid, reliable small molecule HFE calculation for applications in drug design.
我们表明,三维参考相互作用位点模型(3D-RISM-NgB)溶剂化自由能方法的Ng桥函数修正版本能够准确预测一组504个有机分子的水合自由能(HFE)。为此,针对单原子 Lennard-Jones 溶质计算得到的 HFE 调整了一个唯一的常数参数。结果表明,3D-RISM 在不进行校正的情况下预测 HFE 的静电成分时相对准确,但需要对非极性贡献进行修正,该非极性贡献源于溶质在水中形成的空腔。我们使用具有直接相关函数的Ng标度的自由能泛函[Ng, K. C.,, 2680]。这为药物设计应用提供了一种快速、可靠的小分子HFE计算方法。