Ghasemlou Saba, Cuppen Herma M
Faculty of Science, Institute for Molecules and Materials, Radboud University, Nijmegen 6500 HC, The Netherlands.
Computational Chemistry Group, Van't Hoff Institute for Molecular Sciences, University of Amsterdam, Amsterdam 1090 GD, The Netherlands.
ACS Omega. 2024 Jan 8;9(3):3229-3239. doi: 10.1021/acsomega.3c04846. eCollection 2024 Jan 23.
The solid-state phase transition in dl-methionine has been extensively studied because of its atypical behavior. The transition occurs through changes in the molecular conformation and 3D packing of the molecules. Phase transitions in racemic aliphatic amino acid crystals are known to show different behaviors depending on whether conformational changes or packing changes are involved, where the former is thought to proceed through a nucleation-and-growth mechanism in a standard molecule-by-molecule picture, and the latter through a cooperative mechanism. The phase transition of dl-methionine resembles the thermodynamic, kinetic, and structural features of both categories: a conformational change and relative shifts between layers in two directions. The present paper presents molecular dynamics simulations of the phase transition to examine the underlying mechanism from two perspectives: (i) analysis of the scaling behavior of the free energy barriers involved in the phase transition and (ii) a structural inspection of the phase transition. Both methods can help to distinguish between a concerted phase change and a molecule-by-molecule or zip-like mechanism. The free energy predominantly scales with the system size, which suggests a cooperative mechanism. The structural changes draw, however, a slightly more complex picture. The conformational changes appear to occur in a molecule-by-molecule fashion, where the rotational movement is triggered by movement in the same layer. Conformational changes occur on a time scale nearly twice as long as the shifts between layers. Shifts in one direction appear to be less concerted than shifts in the perpendicular direction. We relate this to the edge-free energy involved in these shifts. We believe that the behavior observed in dl-methionine is likely applicable to phase transitions in other layered systems that interact through aliphatic chains as well.
dl-蛋氨酸的固态相变因其非典型行为而受到广泛研究。该相变通过分子构象和分子三维堆积的变化而发生。已知外消旋脂肪族氨基酸晶体中的相变根据涉及的是构象变化还是堆积变化而表现出不同行为,其中前者被认为是在标准的逐个分子的情况下通过成核-生长机制进行的,而后者则通过协同机制进行。dl-蛋氨酸的相变类似于这两类的热力学、动力学和结构特征:构象变化以及两层在两个方向上的相对位移。本文展示了该相变的分子动力学模拟,从两个角度研究其潜在机制:(i)分析相变中涉及的自由能垒的标度行为,以及(ii)对相变进行结构检查。这两种方法都有助于区分协同相变与逐个分子或拉链式机制。自由能主要随系统大小而标度,这表明是一种协同机制。然而,结构变化呈现出一幅稍显复杂的图景。构象变化似乎是以逐个分子的方式发生的,其中旋转运动由同一层中的运动触发。构象变化发生的时间尺度几乎是层间位移的两倍。一个方向上的位移似乎不如垂直方向上的位移协同。我们将此与这些位移中涉及的边缘自由能联系起来。我们认为在dl-蛋氨酸中观察到的行为可能也适用于其他通过脂肪族链相互作用的层状系统中的相变。