溶剂化对尿嘧啶电子共振的影响

IF 3 3区 化学 Q3 CHEMISTRY, PHYSICAL Physical Chemistry Chemical Physics Pub Date : 2025-01-28 DOI:10.1039/D4CP04333B
Divya Tripathi, Maneesh Pyla, Achintya Kumar Dutta and Spiridoula Matsika
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引用次数: 0

摘要

已知低能电子与DNA和RNA核碱基的相互作用形成亚稳态,称为电子共振。本文采用有效片段电位(EFP)溶剂化方法,利用运动耦合簇方程的轨道稳定方法研究了单、双能级(EOM-EA-CCSD)电子亲和的电子与溶剂化的RNA核碱基尿嘧啶的吸附。我们使用多参考方法对该方法进行基准测试,并通过比较EFP和全量子计算。研究了溶剂化对$\pi^*$ LUMO轨道上电子附着形成的第一个单粒子(1p)共振,以及中性尿嘧啶$\pi$-$\pi^*$激发态上电子附着形成的前两个单粒子(2p1h)共振的影响。我们使用分子动力学模拟溶剂构型,并应用基于电荷稳定技术的偏采样来获得足以覆盖整个电子附着能分布范围的构型。发现溶液中的电子附着能分布在一个很宽的能量范围内,2p1h共振在4.6 eV到6.8 eV之间,1p共振在-0.1 eV到2 eV之间。溶剂对两种共振的影响相似,这表明状态的确切电子密度不如溶剂构型重要。多参考计算扩展了最低四个共振的溶剂化效应相似的研究结果,进一步表明比溶质电子密度并不重要,而是水的构型在溶剂化效应中起着最重要的作用。最后,通过将整体溶剂化与周围有少量水分子的尿嘧啶簇进行比较,我们发现微溶剂化的影响与整体溶剂化的影响非常不同。
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Impact of solvation on the electronic resonances in uracil†

Interactions of low-energy electrons with the DNA and RNA nucleobases are known to form metastable states, known as electronic resonances. In this work, we study electron attachment to solvated uracil, an RNA nucleobase, using the orbital stabilization method at the Equation of Motion-Coupled Cluster for Electron Affinities with Singles and Doubles (EOM-EA-CCSD) level of theory with the Effective Fragment Potential (EFP) solvation method. We benchmarked the approach using multireference methods, as well as by comparing EFP and full quantum calculations. The impact of solvation on the first one particle (1p) shape resonance, formed by electron attachment to the π* LUMO orbital, as well as the first two particle one hole (2p1h) resonance, formed by electron attachment to neutral uracil's π–π* excited state, was investigated. We used molecular dynamics simulations for solvent configurations and applied charge stabilization technique-based biased sampling to procure configurations adequate to cover the entire range of the electron attachment energy distribution. The electron attachment energy in solution is found to be distributed over a wide range of energies, between 4.6 eV to 6.8 eV for the 2p1h resonance, and between −0.1 eV to 2 eV for the 1p resonance. The solvent effects were similar for the two resonances, indicating that the exact electron density of the state is not as important as the solvent configurations. Multireference calculations extended the findings showing that solvation effects are similar for the lowest four resonances, further indicating that the specific solute electron density is not as important, but rather the water configurations play the most important role in solvation effects. Finally, by comparing bulk solvation to clusters of uracil with a few water molecules around it, we find that the impact of microsolvation is very different from that of bulk solvation.

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来源期刊
Physical Chemistry Chemical Physics
Physical Chemistry Chemical Physics 化学-物理:原子、分子和化学物理
CiteScore
5.50
自引率
9.10%
发文量
2675
审稿时长
2.0 months
期刊介绍: Physical Chemistry Chemical Physics (PCCP) is an international journal co-owned by 19 physical chemistry and physics societies from around the world. This journal publishes original, cutting-edge research in physical chemistry, chemical physics and biophysical chemistry. To be suitable for publication in PCCP, articles must include significant innovation and/or insight into physical chemistry; this is the most important criterion that reviewers and Editors will judge against when evaluating submissions. The journal has a broad scope and welcomes contributions spanning experiment, theory, computation and data science. Topical coverage includes spectroscopy, dynamics, kinetics, statistical mechanics, thermodynamics, electrochemistry, catalysis, surface science, quantum mechanics, quantum computing and machine learning. Interdisciplinary research areas such as polymers and soft matter, materials, nanoscience, energy, surfaces/interfaces, and biophysical chemistry are welcomed if they demonstrate significant innovation and/or insight into physical chemistry. Joined experimental/theoretical studies are particularly appreciated when complementary and based on up-to-date approaches.
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