Šponer Jiří, Šponer Judit E, Mládek Arnošt, Banáš Pavel, Jurečka Petr, Otyepka Michal
Institute of Biophysics, Academy of Sciences of the Czech Republic, Kralovopolská 135, 612 65 Brno, Czech Republic; CEITEC - Central European Institute of Technology, Campus Bohunice, Kamenice 5, 625 00 Brno, Czech Republic.
Methods. 2013 Nov;64(1):3-11. doi: 10.1016/j.ymeth.2013.05.025. Epub 2013 Jun 7.
In this review primarily written for non-experts we explain basic methodological aspects and interpretation of modern quantum chemical (QM) computations applied to nucleic acids. We introduce current reference QM computations on small model systems consisting of dozens of atoms. Then we comment on recent advance of fast and accurate dispersion-corrected density functional theory methods, which will allow computations of small but complete nucleic acids building blocks in the near future. The qualitative difference between QM and molecular mechanics (MM, force field) computations is discussed. We also explain relation of QM and molecular simulation computations to experiments.
在这篇主要为非专业人士撰写的综述中,我们解释了应用于核酸的现代量子化学(QM)计算的基本方法学方面及解读。我们介绍了当前对由几十个原子组成的小型模型系统进行的参考QM计算。然后我们评论了快速且准确的色散校正密度泛函理论方法的最新进展,这将在不久的将来实现对小型但完整的核酸构建模块的计算。讨论了QM计算与分子力学(MM,力场)计算之间的定性差异。我们还解释了QM计算和分子模拟计算与实验的关系。