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通过 XPS 测量结合从头算和紧束缚模拟揭示尿嘧啶簇中的分子相互作用。

Unravelling molecular interactions in uracil clusters by XPS measurements assisted by ab initio and tight-binding simulations.

机构信息

CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, CP 10, Monterotondo Scalo, Italy.

Synchrotron SOLEIL, L'Orme de Merisiers, Saint Aubin, BP48, 91192, Gif-sur-Yvette Cedex, France.

出版信息

Sci Rep. 2020 Aug 4;10(1):13081. doi: 10.1038/s41598-020-69947-3.

Abstract

The C, N and O 1s XPS spectra of uracil clusters in the gas phase have been measured. A new bottom-up approach, which relies on computational simulations starting from the crystallographic structure of uracil, has been adopted to interpret the measured spectra. This approach sheds light on the different molecular interactions (H-bond, π-stacking, dispersion interactions) at work in the cluster and provides a good understanding of the observed XPS chemical shifts with respect to the isolated molecule in terms of intramolecular and intermolecular screening occurring after the core-hole ionization. The proposed bottom-up approach, reasonably expensive in terms of computational resources, has been validated by finite-temperature molecular dynamics simulations of clusters composed of up to fifty molecules.

摘要

已测量气相中小嘧啶簇的 C、N 和 O 1s XPS 谱。采用了一种新的自下而上的方法,该方法依赖于从尿嘧啶晶体结构开始的计算模拟,以解释测量的光谱。该方法阐明了在簇中起作用的不同分子相互作用(氢键、π-堆积、色散相互作用),并根据核心空穴电离后发生的分子内和分子间屏蔽作用,很好地理解了观察到的 XPS 化学位移与孤立分子相比的情况。所提出的自下而上的方法在计算资源方面代价高昂,已通过多达五十个分子组成的簇的有限温度分子动力学模拟进行了验证。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8347/7403593/e43c37c0794c/41598_2020_69947_Fig1_HTML.jpg

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