小沸石窄孔内分子扩散的过渡态理论模拟

IF 2.1 4区 化学 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY Journal of Molecular Modeling Pub Date : 2025-01-08 DOI:10.1007/s00894-024-06273-9
Yali Feng, Fang Zhao, Xiaofeng Yang
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引用次数: 0

摘要

基于过渡态理论,建立了布鲁斯特沸石窄孔道内分子扩散模型。该模型将势垒处的分子相互作用简化为只考虑斥力,从而推导出扩散系数与温度和Lennard-Jones相互作用参数之间的解析关系。采用分子动力学方法模拟了CF4、CH4、Ar、Ne四种分子在Brewsterite沸石中的扩散,并对模型的合理性进行了评价。结果表明,CF4、CH4和Ar三个分子符合模型的预测,而Ne分子不符合模型的预测。同时,通过分析扩散系数随载荷的变化趋势,进一步解释了产生这种差异的原因。总之,本研究揭示了分子在布鲁斯特沸石窄孔中的扩散机理。这为优化沸石材料的性能并将其应用于催化和分离工艺提供了新的思路。方法采用Refson 's MOLDY程序在NVT系统中进行模拟。采用杆单元法计算了近程Lennard-Jones力。采用诺塞-胡佛恒温器实现样品的热平衡状态。在仿真中,时间步长为1 fs,仿真总时间为51 ns。初始温度设定为300k。
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Transition state theoretical modelling of molecular diffusion within the narrow pores of brewsterite zeolite

Context

Based on the transition state theory, a molecular diffusion model in the narrow channels of Brewsterite zeolite was established. In this model, the molecular interaction at the potential barrier was simplified to only consider the repulsive potential, so that the analytical relationship between the diffusion coefficient and the temperature and the Lennard–Jones interaction parameter was derived. We used the molecular dynamics method to simulate the diffusion of four molecules, CF4, CH4, Ar, and Ne, in Brewsterite zeolite and evaluated the rationality of the model. The results show that the three molecules CF4, CH4, and Ar meet the predictions of the model, while the Ne molecule does not. At the same time, by analyzing the trend of the diffusion coefficient with the load, we further explain the reason for this difference. In short, this study reveals the diffusion mechanism of molecules in the narrow pores of Brewsterite zeolite. This provides new ideas for optimizing the performance of zeolite materials and applying them to catalysis and separation processes.

Methods

The simulations were carried out with Refson’s MOLDY code in the NVT ensemble. The short-range Lennard–Jones forces were calculated with the link cell method. A Nose–Hoover thermostat was used to realize the thermal equilibrium state of the samples. In the simulation, the time steps were 1 fs and the total simulation time was 51 ns. The initial temperature was set to 300 K.

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来源期刊
Journal of Molecular Modeling
Journal of Molecular Modeling 化学-化学综合
CiteScore
3.50
自引率
4.50%
发文量
362
审稿时长
2.9 months
期刊介绍: The Journal of Molecular Modeling focuses on "hardcore" modeling, publishing high-quality research and reports. Founded in 1995 as a purely electronic journal, it has adapted its format to include a full-color print edition, and adjusted its aims and scope fit the fast-changing field of molecular modeling, with a particular focus on three-dimensional modeling. Today, the journal covers all aspects of molecular modeling including life science modeling; materials modeling; new methods; and computational chemistry. Topics include computer-aided molecular design; rational drug design, de novo ligand design, receptor modeling and docking; cheminformatics, data analysis, visualization and mining; computational medicinal chemistry; homology modeling; simulation of peptides, DNA and other biopolymers; quantitative structure-activity relationships (QSAR) and ADME-modeling; modeling of biological reaction mechanisms; and combined experimental and computational studies in which calculations play a major role.
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