Photorelaxation of imidazole and adenine via electron-driven proton transfer along HO wires.

Faraday Discuss

Institute of Biophysics, Academy of Sciences of the Czech Republic, Královopolská 135, 61265, Brno, Czech Republic. and CEITEC-Central European Institute of Technology, Masaryk University, Campus Bohunice, Kamenice 5, CZ-62500 Brno, Czech Republic.

Published: December 2016

Photochemically created πσ* states were classified among the most prominent factors determining the ultrafast radiationless deactivation and photostability of many biomolecular building blocks. In the past two decades, the gas phase photochemistry of πσ* excitations was extensively investigated and was attributed to N-H and O-H bond fission processes. However, complete understanding of the complex photorelaxation pathways of πσ* states in the aqueous environment was very challenging, owing to the direct participation of solvent molecules in the excited-state deactivation. Here, we present non-adiabatic molecular dynamics simulations and potential energy surface calculations of the photoexcited imidazole-(HO) cluster using the algebraic diagrammatic construction method to the second-order [ADC(2)]. We show that electron driven proton transfer (EDPT) along a wire of at least two water molecules may lead to the formation of a πσ*/S state crossing, similarly to what we suggested for 2-aminooxazole. We expand on our previous findings by direct comparison of the imidazole-(HO) cluster to non-adiabatic molecular dynamics simulations of imidazole in the gas phase, which reveal that the presence of water molecules extends the overall excited-state lifetime of the chromophore. To embed the results in a biological context, we provide calculations of potential energy surface cuts for the analogous photorelaxation mechanism present in adenine, which contains an imidazole ring in its structure.

Download full-text PDF

Source
http://dx.doi.org/10.1039/c6fd00131aDOI Listing

Publication Analysis

Top Keywords

proton transfer
8
πσ* states
8
gas phase
8
non-adiabatic molecular
8
molecular dynamics
8
dynamics simulations
8
potential energy
8
energy surface
8
imidazole-ho cluster
8
water molecules
8

Similar Publications

Efficient Sampling for Machine Learning Electron Density and Its Response in Real Space.

J Chem Theory Comput

January 2025

Key Laboratory of Precision and Intelligent Chemistry, Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China.

Electron density is a fundamental quantity that can in principle determine all ground state electronic properties of a given system. Although machine learning (ML) models for electron density based on either an atom-centered basis or a real-space grid have been proposed, the demand for a number of high-order basis functions or grid points is enormous. In this work, we propose an efficient grid-point sampling strategy that combines targeted sampling favoring a large density and a screening of grid points associated with linearly independent atomic features.

View Article and Find Full Text PDF

On the Role of Hydrogen Migrations in the Taxadiene System.

Angew Chem Int Ed Engl

January 2025

University of Bonn: Rheinische Friedrich-Wilhelms-Universitat Bonn, Kekulé Institute for Organic Chemistry and Biochemistry, Gerhard-Domagk-Straße 1, 53121, Bonn, GERMANY.

Taxa-4,11-diene is made by the taxa-4,11-diene synthase (TxS) from Taxus brevifolia. The unique reactivity of the taxane system is characterised by long distance hydrogen migrations in the biosynthesis. This study demonstrates that selective long range hydrogen migrations also play a role in the high energy process of the EI-MS fragmentation of taxa-4,11-diene.

View Article and Find Full Text PDF

Purpose: To assess the effectiveness of Amide Proton Transfer (APT) imaging in predicting the histopathological characteristics of cervical cancer.

Methods: A comprehensive literature search was conducted across multiple databases, covering studies until December 27, 2023. The meta-analysis was performed using Stata 15 and Review Manager 5.

View Article and Find Full Text PDF

Evaluation of Brain Impairment Using Proton Exchange Rate MRI in a Kainic Acid-Induced Rat Model of Epilepsy.

Mol Imaging Biol

January 2025

Paul C. Lauterbur Research Center for Biomedical Imaging, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen, Guangdong, China.

Purpose: Proton exchange rate (K) is a valuable biophysical metric. K MRI may augment conventional structural MRI by revealing brain impairments at the molecular level. This study aimed to investigate the feasibility of K MRI in evaluating brain injuries at multiple epilepsy stages.

View Article and Find Full Text PDF

Tracking the correlation between spintronic structure and oxygen evolution reaction mechanism of cobalt-ruthenium-based electrocatalyst.

Nat Commun

January 2025

State Key Laboratory of Fine Chemicals, Frontiers Science Center for Smart Materials Oriented Chemical Engineering, School of Chemical Engineering, Dalian University of Technology, Dalian, China.

Regulating the spintronic structure of electrocatalysts can improve the oxygen evolution reaction performance efficiently. Nonetheless, the effects of tuning the spintronic structure for the oxygen evolution reaction mechanisms have rarely been discussed. Here, we show a ruthenium-cobalt-tin oxide with optimized spintronic structure due to the quantum spin interaction of Ru and Co.

View Article and Find Full Text PDF

Want AI Summaries of new PubMed Abstracts delivered to your In-box?

Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!