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arXiv 1301.4802cond-mat.stat-mechphysics.chem-ph
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自适应分辨技术在类巨正则分子动力学模拟中的应用

Grand-canonical-like molecular-dynamics simulations by using an adaptive-resolution technique

Han Wang, Carsten Hartmann, Christof Schütte, Luigi Delle Site

摘要:

在这项工作中,我们提供了一个详细的理论分析,数值试验的支持下,在采样的巨正则系综的自适应分辨率模拟(AdResS)技术的可靠性。我们证明,正确的密度和径向分布函数的混合区域,分子改变分辨率,是两个必要条件,考虑原子和粗粒度的区域在AdResS相当于一个完整的原子系统的子系统的精度高达二阶相对于系统的概率分布。此外,我们表明,所做的工作,由恒温器和热力学力在过渡区是正式等价的,以平衡不同的分辨率之间的化学电势差。从这些结果如下的主要结论,原子区域交换分子与粗粒区域中的一个大典的方式与精度高达(至少)二阶。数值试验,在环境条件下的液态水的相关情况下,进行了加强的理论分析的结论。最后,为了显示AdResS作为一个大正则集的计算方便,我们比较我们的方法插入粒子方法(IMP)在其最有效的计算实现。这种富有成效的理论原理和数值证据的结合候选人的自适应分辨率技术作为一个自然的,一般的和有效的协议,大典分子动力学的情况下,大系统。

英文摘要:

In this work, we provide a detailed theoretical analysis, supported by numerical tests, of the reliability of the adaptive resolution simulation (AdResS) technique in sampling the Grand Canonical ensemble. We demonstrate that the correct density and radial distribution functions in the hybrid region, where molecules change resolution, are two necessary conditions for considering the atomistic and coarse-grained regions in AdResS equivalent to subsystems of a full atomistic system with an accuracy up to the second order with respect to the probability distribution of the system. Moreover, we show that the work done by the thermostat and a thermodynamic force in the transition region is formally equivalent to balance the chemical potential difference between the different resolutions. From these results follows the main conclusion that the atomistic region exchanges molecules with the coarse-grained region in a Grand Canonical fashion with an accuracy up to (at least) second order. Numerical tests, for the relevant case of liquid water at ambient conditions, are carried out to strengthen the conclusions of the theoretical analysis. Finally, in order to show the computational convenience of AdResS as a Grand Canonical set up, we compare our method to the Insertion Particle Method (IMP) in its most efficient computational implementation. This fruitful combination of theoretical principles and numerical evidence candidates the adaptive resolution technique as a natural, general and efficient protocol for Grand Canonical Molecular Dynamics for the case of large systems.

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