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探索非挥发性物质(NVE)经典轨迹作为分子晶体结构预测的工具,并对冰多晶型物进行测试。

Exploration of NVE classical trajectories as a tool for molecular crystal structure prediction, with tests on ice polymorphs.

作者信息

Buch V, Martonák R, Parrinello M

机构信息

The Fritz Haber Institute for Molecular Dynamics, The Hebrew University, Jerusalem 91904, Israel.

出版信息

J Chem Phys. 2006 May 28;124(20):204705. doi: 10.1063/1.2198533.

DOI:10.1063/1.2198533
PMID:16774362
Abstract

Following an initial Communication [Buch et al., J. Chem. Phys. 123, 051108 (2005)], a new molecular-dynamics-based approach is explored to search for candidate crystal structures of molecular solids corresponding to minima of the enthalpy. The approach is based on the observation of phase transitions in an artificial periodic system with a small unit cell and relies on the existence of an optimal energy range for observing freezing to low-lying minima in the course of classical trajectories. Tests are carried out for O structures of nine H2O-ice polymorphs. NVE trajectories for a range of preimposed box shapes display freezing to the different crystal polymorphs whenever the box dimensions approximate roughly the appropriate unit cell; the exception is ice II for which freezing requires unit cell dimensions close to the correct ones. In an alternate version of the algorithm, an initial box shape is picked at random and subsequently readjusted at short trajectory intervals by enthalpy minimization. Tests reveal the existence of ice forms which are "difficult" and "easy" to locate in this way. The former include ice IV, which is also difficult to crystallize experimentally from the liquid, and ice II, which does not interface with the liquid in the phase diagram. On the other hand, the latter crystal search procedure located successfully the remaining seven ice polymorphs, including ice V, which corresponds to the most complicated structure of all ice phases, with a monoclinic cell of 28 molecules.

摘要

继最初的一篇通讯文章[布赫等人,《化学物理杂志》123,051108(2005年)]之后,探索了一种基于分子动力学的新方法,以寻找对应于焓极小值的分子固体候选晶体结构。该方法基于对具有小晶胞的人工周期性系统中相变的观察,并依赖于在经典轨迹过程中观察到冻结到低能极小值的最佳能量范围的存在。对九种H₂O冰多晶型物的O结构进行了测试。对于一系列预先设定的盒子形状,只要盒子尺寸大致接近合适的晶胞,NVE轨迹就会显示冻结到不同的晶体多晶型物;例外的是冰II,其冻结需要接近正确尺寸的晶胞。在该算法的另一个版本中,随机选择一个初始盒子形状,随后在短轨迹间隔内通过焓最小化进行重新调整。测试揭示了以这种方式“难以”和“容易”定位的冰的形式的存在。前者包括冰IV(它也很难从液体中通过实验结晶)和冰II(它在相图中不与液体界面)。另一方面,后一种晶体搜索程序成功地找到了其余七种冰多晶型物,包括冰V,它对应于所有冰相中最复杂的结构,具有一个由28个分子组成的单斜晶胞。

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