Tan Chunhu, Tan Yu-Hong, Luo Ray
Department of Molecular Biology and Biochemistry, University of California, Irvine, California 92697-3900, USA.
J Phys Chem B. 2007 Oct 25;111(42):12263-74. doi: 10.1021/jp073399n. Epub 2007 Oct 5.
We have systematically analyzed a new nonpolar solvent model that separates nonpolar solvation free energy into repulsive and attractive components. Our analysis shows that either molecular surfaces or volumes can be used to correlate with repulsive free energies of tested molecules in explicit solvent with correlation coefficients higher than 0.99. In addition, the attractive free energies in explicit solvent can also be reproduced with the new model with a correlation coefficient higher than 0.999. Given each component optimized, the new nonpolar solvent model is found to reproduce monomer nonpolar solvation free energies in explicit solvent very well. However, the overall accuracy of the nonpolar solvation free energies is lower than that of each component. In the more challenging dimer test cases, the agreement of the new model with explicit solvent is less impressive. Nevertheless, it is found that the new model works reasonably well for reproducing the relative nonpolar free energy landscapes near the global minimum of the dimer complexes.
我们系统地分析了一种新的非极性溶剂模型,该模型将非极性溶剂化自由能分为排斥和吸引两个部分。我们的分析表明,无论是分子表面还是分子体积,都可用于与在显式溶剂中测试分子的排斥自由能进行关联,相关系数高于0.99。此外,新模型还能以高于0.999的相关系数再现显式溶剂中的吸引自由能。在对每个部分进行优化后,发现新的非极性溶剂模型能够很好地再现显式溶剂中单体的非极性溶剂化自由能。然而,非极性溶剂化自由能的整体精度低于每个部分的精度。在更具挑战性的二聚体测试案例中,新模型与显式溶剂的一致性并不那么令人印象深刻。尽管如此,我们发现新模型在再现二聚体复合物全局最小值附近的相对非极性自由能态势方面表现相当不错。