On the Simulation of Thermal Isomerization of Molecular Photoswitches in Biological Systems

A Bakhtiiari, GJ Costa, R Liang - Journal of Chemical Theory and …, 2023 - ACS Publications
Molecular photoswitches offer precise, reversible photocontrol over biomolecular functions
and are promising light-regulated drug candidates with minimal side effects. Quantifying …

Effect of initial conditions sampling on surface hopping simulations in the ultrashort and picosecond time range. azomethane photodissociation as a case study

C Pieroni, F Becuzzi, L Creatini… - Journal of Chemical …, 2023 - ACS Publications
We tested the effect of different ways of sampling the initial conditions in surface hopping
simulations, with a focus on the initial energy distributions and on the treatment of the zero …

Theoretical Insight into the Fluorescence Spectral Tuning Mechanism: A Case Study of Flavin-Dependent Bacterial Luciferase

X Fu, W Diao, Y Luo, Y Liu, Z Wang - Journal of Chemical Theory …, 2024 - ACS Publications
Bioluminescence of bacteria is widely applied in biological imaging, environmental toxicant
detection, and many other situations. Understanding the spectral tuning mechanism not only …

Effects of enzyme–ligand interactions on the photoisomerization of a light-regulated chemotherapeutic drug

R Liang, A Bakhtiiari - The Journal of Physical Chemistry B, 2022 - ACS Publications
Molecular photoswitches permit using light to control protein activity with high
spatiotemporal resolutions, thereby alleviating the side effects of conventional …

Development of Parallel On-the-Fly Crystal Algorithm for Global Exploration of Conical Intersection Seam Space

A Pandey, B Poirier, R Liang - Journal of Chemical Theory and …, 2024 - ACS Publications
Conical intersection (CI) seams are configuration spaces of a molecular system where two
or more (spin) adiabatic electronic states are degenerate in energy. They play essential …

Protein confinement fine-tunes aggregation-induced emission in human serum albumin

R Liang, D Das, A Bakhtiiari - Physical Chemistry Chemical Physics, 2021 - pubs.rsc.org
Luminogens exhibiting aggregation-induced-emission characteristics (AIEgens) have been
designed as sensitive biosensors thanks to their “turn-on” fluorescence upon target binding …

Ultra-fast excited-state dynamics of substituted trans-naphthalene azo moieties

RC Hamburger, T Huang, SM Martin… - Physical Chemistry …, 2023 - pubs.rsc.org
In this work we untangle the ultrafast deactivation of high-energy excited states in four
naphthalene-based azo dyes. Through systematic photophysical and computational study …

Parametrically Managed Activation Functions for Improved Global Potential Energy Surfaces for Six Coupled 5 A′ States and Fourteen Coupled 3 A′ States of O+ …

Y Shu, FB Akher, H Guo, DG Truhlar - The Journal of Physical …, 2024 - ACS Publications
We report new potential energy surfaces for six coupled 5 A′ states and 14 coupled 3 A′
states of O3. The new surfaces are created by parametrically managed diabatization by …

Photoisomerization Dynamics of Azo-Escitalopram Using Surface Hopping and a Semiempirical Method

HG Gallmetzer, E Sangiogo Gil… - The Journal of Physical …, 2024 - ACS Publications
The photoisomerization dynamics of azo-escitalopram, a synthetic photoswitchable inhibitor
of the human serotonin transporter, is investigated in both gas-phase and water. We use the …

ReaxFF-based nonadiabatic dynamics method for azobenzene derivatives

H Osthues, NL Doltsinis - The Journal of Chemical Physics, 2022 - pubs.aip.org
ReaxFF reactive force fields have been parameterized for the ground and first excited states
of azobenzene and its derivatives. In addition, an extended set of ab initio reference data …