Laboratory of Computation Biology, National Heart, Lung, and Blood Institute, National Institutes of Health, Bethesda, Maryland 20892.
J Chem Theory Comput. 2008 Jan;4(1):107-15. doi: 10.1021/ct700191v.
New CHARMM force field (FF) parameters are developed for nitro compounds, referred to here as C27rn, for subsequent use in molecular dynamics (MD) simulations. The nonbonded terms are adjusted to best fit densities and hydration energies of nitropropane and nitrobenzene. High-level quantum mechanical calculations are used to obtain accurate conformational energies of nitroalkanes and nitrobenzene and to adjust the torsional potential of the CHARMM FF. For nitroalkanes, the calculated gauche (g) conformer of the C-C-C-N torsion is more stable than trans (t). Consequently, nitropropane MD simulations with C27rn result in 74% population of this g conformer. The C27rn FF is in excellent agreement with experiment for various bulk (density, isothermal compressibility, and heat of vaporization) and interfacial (surface tension) properties of nitropropane, nitrobutane, and nitrobenzene. MD simulations with the OPLS-AA FF for nitropropane and nitrobenzene result in similar property predictions as C27rn, except a reduced stability of the C-C-C-N g conformer.
新的 CHARMM 力场 (FF) 参数是为硝基化合物开发的,这里称为 C27rn,用于随后的分子动力学 (MD) 模拟。非键项进行了调整,以最佳拟合硝基丙烷和硝基苯的密度和水合能。使用高级量子力学计算来获得硝基烷烃和硝基苯的准确构象能,并调整 CHARMM FF 的扭转势。对于硝基烷烃,C-C-C-N 扭转的计算 gauche (g) 构象比 trans (t) 更稳定。因此,使用 C27rn 的硝基丙烷 MD 模拟中,g 构象的比例为 74%。C27rn FF 与实验在硝基丙烷、硝基丁烷和硝基苯的各种体相(密度、等温压缩系数和蒸发热)和界面(表面张力)性质上非常吻合。对于硝基丙烷和硝基苯,使用 OPLS-AA FF 的 MD 模拟的预测性质与 C27rn 相似,只是 C-C-C-N g 构象的稳定性降低。