Quantum dynamics analysis of transition-state spectrum for the SH + HS → HS + SH reaction.

Phys Chem Chem Phys

Department of Chemistry, Saitama University, 255 Shimo-Okubo, Sakura-ku, Saitama City, Saitama 338-8570, Japan.

Published: September 2020


Category Ranking

98%

Total Visits

921

Avg Visit Duration

2 minutes

Citations

20

Article Abstract

We present the results of quantum wave packet calculations analyzing the experimental transition-state spectrum for the SH + H2S hydrogen transfer reaction based on photodetachment of the H3S2- anion. We used a reduced-dimensionality model in which four normal-mode coordinates were considered for the dynamics of the neutral transition state. The four-dimensional potential energy surfaces for the anionic and neutral states were constructed using four different levels of theory, namely, MP2, B3LYP, CAM-B3LYP, and LC-BLYP, with the aug-cc-pVDZ basis set. The spectrum calculated using the scaled MP2 potential energy surface was in reasonable agreement with the experimental spectrum. The present theoretical study confirms that the vibrational progression observed experimentally is associated with the antisymmetric motion of the transferred hydrogen atom. We also found that the S-S stretching motion plays an important role in the transition-state dynamics.

Download full-text PDF

Source
http://dx.doi.org/10.1039/d0cp03072dDOI Listing

Publication Analysis

Top Keywords

transition-state spectrum
8
potential energy
8
quantum dynamics
4
dynamics analysis
4
analysis transition-state
4
spectrum
4
spectrum →
4
→ reaction
4
reaction quantum
4
quantum wave
4

Similar Publications

Context: In this work, the molecular properties of the novel semi-aliphatic polyimide derivative with incorporating bulky -CF side groups (3H-6F) in gas, chloroform and acetonitrile have been studied by DFT and TDDFT methods. The optimal reaction path could be found to regulate the occurrence of excited-state intramolecular proton transfer (ESIPT) reaction. In S state, the strength of O1-H2···O3 hydrogen bond increases significantly and contributes to the ESIPT reaction providing the driving force.

View Article and Find Full Text PDF

Identification of a nanobody able to catalyze the destruction of the spike-trimer of SARS-CoV-2.

Front Med

June 2025

Key Laboratory of Epigenetic Regulation and Intervention, Institute of Biophysics, Chinese Academy of Sciences, Beijing, 100101, China.

Neutralizing antibodies have been designed to specifically target and bind to the receptor binding domain (RBD) of spike (S) protein to block severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) virus from attaching to angiotensin converting enzyme 2 (ACE2). This study reports a distinctive nanobody, designated as VHH21, that directly catalyzes the S-trimer into an irreversible transition state through postfusion conformational changes. Derived from camels immunized with multiple antigens, a set of nanobodies with high affinity for the S1 protein displays abilities to neutralize pseudovirion infections with a broad resistance to variants of concern of SARS-CoV-2, including SARS-CoV and BatRaTG13.

View Article and Find Full Text PDF

Manipulating Intrapore Energy Barriers in Graphene Oxide Nanochannels for Targeted Removal of Short-Chain PFAS.

ACS Nano

April 2025

Nanoscale Science and Engineering Laboratory (NSEL), Department of Mechanical and Aerospace Engineering, Monash University, 20 Research Way, Clayton, VIC 3800, Australia.

Removal of per- and polyfluoroalkyl substances (PFAS) from water has become a research topic of interest in recent times. However, it is very challenging to remove short-chain ( View Article and Find Full Text PDF

A nonequilibrium kinetic model of high-resolution vibrational energy transfer in RDX from selective IR excitation.

J Chem Phys

December 2024

Center for Engineering Concepts Development, Department of Mechanical Engineering, University of Maryland at College Park, College Park, Maryland 20742, USA.

In this paper, we develop a model based on a second quantization-with anharmonic phonon scattering and the phonon Boltzmann transport equation-to study precise high-resolution nonequilibrium vibrational energy transfer (VET) under selective phonon excitation in cyclotrimethylene trinitramine. We simulate mid-infrared pump-probe spectroscopy and observe a prompt appearance (<1 ps) of broad-spectrum intensity, which agrees well with experimental data in the literature. The selective excitation of phonons at different frequencies reveals distinct VET pathways and the kinetic evolution of mode occupations as the system reaches a new equilibrium temperature.

View Article and Find Full Text PDF

Computational Characterization of the DAD Photoisomerization: Functionalization, Protonation, and Solvation Effects.

J Phys Chem B

November 2024

Departamento de Química Física de Materiales, Instituto de Química Física Blas Cabrera, CSIC, 28006 Madrid, Spain.

Photoswitches are becoming increasingly popular in pharmacology due to the possibility of modifying their activity with light. Hence, it is crucial to understand the photophysics of these compounds to identify promising light-activated drugs. We focused our study on DAD, an azobenzene derivative that, according to a previous experimental investigation, can restore visual function in blind mice due to - photoisomerization upon light absorption.

View Article and Find Full Text PDF