生物晶体电子和光学性质的第一性原理建模:以无水鸟嘌呤为例

IF 3.2 3区 化学 Q2 CHEMISTRY, PHYSICAL
Parfaite Senou, Carlo Adamo and Frédéric Labat*, 
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引用次数: 0

摘要

生物晶体,特别是鸟嘌呤晶体对某些生物体操纵光线至关重要。然而,目前缺乏对其不同晶型的性质和所考虑的计算方法的效果的系统研究。在这项研究中,我们提出了一种基于密度泛函理论(DFT)的计算研究,使用局部基集形式对三种结晶形式的无水鸟嘌呤(AG)的关键性质进行了研究。研究了它们的结构、电子、振动红外、拉曼和折射性质。此外,在计算数据的基础上,我们首次提出了第四种AG形式。在大多数情况下,我们发现计算数据与现有的实验数据吻合得非常好或非常好。特别是,所有AG形式都是热力学可接近的,其计算晶格能的差异低于1 kcal/mol。然而,在考虑所有DFT模型的情况下,发现先前提出的正交γ形式系统地对应于势能表面上的二阶鞍点。另一方面,所提出的γ′形式是一个真正的最小值,并显示出已经在实验中获得的β形式和光学性质接近其他稳定多晶所提供的特征拉曼特征。这表明γ′可能也有助于AG多态性,并为某些生物体产生特定的光学效应提供了额外的可能性。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

First-Principles Modeling of the Electronic and Optical Properties of Biogenic Crystals: The Case of Anhydrous Guanine

First-Principles Modeling of the Electronic and Optical Properties of Biogenic Crystals: The Case of Anhydrous Guanine

Biogenic crystals and, in particular, guanine crystals are crucial for certain organisms in manipulating light. A systematic study of the properties of their different crystalline forms and the effect of the computational method considered is, however, currently lacking. In this study, we present a density functional theory (DFT)-based computational investigation using local basis set formalisms of the key properties of three crystalline forms of anhydrous guanine (AG). Their structural, electronic, vibrational Infrared, Raman, and refractive properties have been investigated. In addition, based on the computed data, we present for the first time a fourth AG form. In most cases, we find the computed data to be in very good to excellent agreement with the available experimental data. In particular, all AG forms are found to be thermodynamically accessible with differences in their computed lattice energies lower than ∼1 kcal/mol. However, the previously proposed orthorhombic γ form is found to systematically correspond to a second-order saddle point on the potential energy surface with all DFT models considered. On the other hand, the proposed γ′ form is a true minimum and displays a characteristic Raman signature already obtained experimentally for the β form and optical properties close to those provided by the other stable polymorphs. This indicates that γ′ might also contribute to AG polymorphism and offer an additional possibility for certain organisms to generate specific optical effects.

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来源期刊
The Journal of Physical Chemistry C
The Journal of Physical Chemistry C 化学-材料科学:综合
CiteScore
6.50
自引率
8.10%
发文量
2047
审稿时长
1.8 months
期刊介绍: The Journal of Physical Chemistry A/B/C is devoted to reporting new and original experimental and theoretical basic research of interest to physical chemists, biophysical chemists, and chemical physicists.
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