Universal QM/MM approaches for general nanoscale applications

KS Csizi, M Reiher - Wiley Interdisciplinary Reviews …, 2023 - Wiley Online Library
Quantum mechanics/molecular mechanics (QM/MM) hybrid models allow one to address
chemical phenomena in complex molecular environments. Whereas this modeling approach …

[HTML][HTML] Hybrid QM/classical models: Methodological advances and new applications

F Lipparini, B Mennucci - Chemical Physics Reviews, 2021 - pubs.aip.org
Hybrid methods that combine quantum mechanical descriptions with classical models are
very popular in molecular modeling. Such a large diffusion reflects their effectiveness, which …

Contribution of the molecular fluorophore IPCA to excitation-independent photoluminescence of carbon dots

M Langer, T Hrivnak, M Medved'… - The Journal of Physical …, 2021 - ACS Publications
Carbon dots (CDs) are intensively studied nanomaterials with many potential applications
stemming from their bright photoluminescence (PL), stability, biocompatibility, and other …

Excited states in large molecular systems through polarizable embedding

NH List, JMH Olsen, J Kongsted - Physical Chemistry Chemical …, 2016 - pubs.rsc.org
In this perspective, we provide an overview of recent work within the polarizable embedding
scheme to describe properties of molecules in realistic environments of increasing …

Color tuning in bovine rhodopsin through polarizable embedding

D Di Prima, P Reinholdt, J Kongsted - The Journal of Physical …, 2024 - ACS Publications
Bovine rhodopsin is among the most studied proteins in the rhodopsin family. Its primary
activation mechanism is the photoisomerization of 11-cis retinal, triggered by the absorption …

Importance of Polarizable Embedding for Absorption Spectrum Calculations of Arabidopsis thaliana Cryptochrome 1

A Frederiksen, L Gerhards, P Reinholdt… - The Journal of …, 2024 - ACS Publications
Cryptochromes are essential flavoproteins for circadian rhythms and avian
magnetoreception. Flavin adenine dinucleotide (FAD), a chromophore within …

Solvent effects on the second harmonic responses of donor–acceptor Stenhouse adducts: from implicit to hybrid solvation models

A Dellai, I Krismer, G Prampolini… - Physical Chemistry …, 2025 - pubs.rsc.org
The effect of conformational dynamics and solvent interactions on the second-order
nonlinear optical (NLO) responses of the open and closed forms of a donor–acceptor …

Origin of DNA-induced circular dichroism in a minor-groove binder

N Holmgaard List, J Knoops… - Journal of the …, 2017 - ACS Publications
Induced circular dichroism (ICD) of DNA-binding ligands is well known to be strongly
influenced by the specific mode of binding, but the relative importance of the possible …

Force field benchmark of amino acids. 2. Partition coefficients between water and organic solvents

H Zhang, Y Jiang, Z Cui, C Yin - Journal of Chemical Information …, 2018 - ACS Publications
The partitioning of amino acids between water and apolar environments is of vital
importance in protein function and drug delivery. Here we present an extensive benchmark …

Response properties of embedded molecules through the polarizable embedding model

C Steinmann, P Reinholdt, MS Nørby… - … Journal of Quantum …, 2019 - Wiley Online Library
The polarizable embedding (PE) model is a fragment‐based quantum‐classical approach
aimed at accurate inclusion of environment effects in quantum‐mechanical response …