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生物系统分子动力学模拟的方法学进展

Methodological advances in molecular dynamics simulations of biological systems.

作者信息

Brooks C L

机构信息

Department of Molecular Biology, Scripps Research Institute, La Jolla, California 92037, USA.

出版信息

Curr Opin Struct Biol. 1995 Apr;5(2):211-5. doi: 10.1016/0959-440x(95)80078-6.

Abstract

New advances in the techniques used to simulate specific statistical ensembles provide molecular dynamics algorithms that permit rigorous connections to be made between thermodynamic observables and calculated quantities in simulations of biological molecules. The complete inclusion of electrostatic forces in simulations also improves the comparison between calculations of simple structural measures in crystals and X-ray crystallographic results. These advances coupled with the ongoing development of more accurate inter/intramolecular forcefields with enhanced accuracy provide guidelines and benchmarks for comparison as we move to study more complicated biological problems.

摘要

用于模拟特定统计系综的技术取得了新进展,这为分子动力学算法提供了支持,使得在生物分子模拟中能够在热力学可观测量与计算量之间建立起严格的联系。在模拟中完全纳入静电力也改善了晶体中简单结构测量计算结果与X射线晶体学结果之间的比较。随着我们着手研究更复杂的生物学问题,这些进展,再加上不断发展的具有更高精度的分子间/分子内力场,为比较提供了指导方针和基准。

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