Suppr超能文献

通过并行马尾采样实现 QM/MM 分子动力学模拟中的多纳秒时间尺度。

Reaching multi-nanosecond timescales in combined QM/MM molecular dynamics simulations through parallel horsetail sampling.

机构信息

SRSMC, Faculté des Sciences et Technologies, University of Lorraine, CNRS, BP 70236, 54506 Vandoeuvre-lès-Nancy, France.

出版信息

J Comput Chem. 2017 Apr 15;38(10):659-668. doi: 10.1002/jcc.24723. Epub 2017 Jan 17.

Abstract

We report an enhanced sampling technique that allows to reach the multi-nanosecond timescale in quantum mechanics/molecular mechanics molecular dynamics simulations. The proposed technique, called horsetail sampling, is a specific type of multiple molecular dynamics approach exhibiting high parallel efficiency. It couples a main simulation with a large number of shorter trajectories launched on independent processors at periodic time intervals. The technique is applied to study hydrogen peroxide at the water liquid-vapor interface, a system of considerable atmospheric relevance. A total simulation time of a little more than 6 ns has been attained for a total CPU time of 5.1 years representing only about 20 days of wall-clock time. The discussion of the results highlights the strong influence of the solvation effects at the interface on the structure and the electronic properties of the solute. © 2017 Wiley Periodicals, Inc.

摘要

我们报告了一种增强采样技术,该技术可在量子力学/分子力学分子动力学模拟中达到多纳秒的时间尺度。所提出的技术称为马尾采样,是一种特殊类型的多分子动力学方法,具有很高的并行效率。它将主模拟与在独立处理器上以周期性时间间隔启动的大量较短轨迹耦合。该技术应用于研究水液-气相界面处的过氧化氢,这是一个具有相当大气相关性的系统。对于总 CPU 时间为 5.1 年的总模拟时间,仅略多于 6 纳秒,这代表了大约 20 天的壁钟时间。对结果的讨论强调了界面处溶剂化效应对溶质结构和电子性质的强烈影响。©2017 年威利父子公司

文献检索

告别复杂PubMed语法,用中文像聊天一样搜索,搜遍4000万医学文献。AI智能推荐,让科研检索更轻松。

立即免费搜索

文件翻译

保留排版,准确专业,支持PDF/Word/PPT等文件格式,支持 12+语言互译。

免费翻译文档

深度研究

AI帮你快速写综述,25分钟生成高质量综述,智能提取关键信息,辅助科研写作。

立即免费体验