Department of Physics, Chemistry and Pharmacy, University of Southern Denmark, Odense, Denmark.
PLoS One. 2013 Jul 2;8(7):e67725. doi: 10.1371/journal.pone.0067725. Print 2013.
An interface between semi-empirical methods and the polarized continuum model (PCM) of solvation successfully implemented into GAMESS following the approach by Chudinov et al (Chem. Phys. 1992, 160, 41). The interface includes energy gradients and is parallelized. For large molecules such as ubiquitin a reasonable speedup (up to a factor of six) is observed for up to 16 cores. The SCF convergence is greatly improved by PCM for proteins compared to the gas phase.
采用 Chudinov 等人的方法(Chem. Phys. 1992, 160, 41),成功地在 GAMESS 中实现了半经验方法和溶剂化的极化连续模型(PCM)之间的接口。该接口包括能量梯度,并进行了并行化处理。对于像泛素这样的大分子,在多达 16 个核的情况下,观察到合理的加速(最高可达 6 倍)。与气相相比,PCM 大大改善了蛋白质的 SCF 收敛性。