Universal QM/MM approaches for general nanoscale applications
Quantum mechanics/molecular mechanics (QM/MM) hybrid models allow one to address
chemical phenomena in complex molecular environments. Whereas this modeling approach …
chemical phenomena in complex molecular environments. Whereas this modeling approach …
Water in protein hydration and ligand recognition
M Maurer, C Oostenbrink - Journal of Molecular Recognition, 2019 - Wiley Online Library
This review describes selected basics of water in biomolecular recognition. We focus on a
qualitative understanding of the most important physical aspects, how these change in …
qualitative understanding of the most important physical aspects, how these change in …
Systematic optimization of water models using liquid/vapor surface tension data
In this work, we investigate whether experimental surface tension measurements, which are
less sensitive to quantum and self-polarization corrections, are able to replace the usual …
less sensitive to quantum and self-polarization corrections, are able to replace the usual …
Deriving a polarizable force field for biomolecular building blocks with minimal empirical calibration
KM Visscher, DP Geerke - The Journal of Physical Chemistry B, 2020 - ACS Publications
Force field parametrization involves a complex set of linked optimization problems, with the
goal of describing complex molecular interactions by using simple classical potential-energy …
goal of describing complex molecular interactions by using simple classical potential-energy …
Polarizable Embedding with a Transferable H2O Potential Function I: Formulation and Tests on Dimer
The incorporation of mutual polarization in multiscale simulations where different regions of
the system are treated at different level of theory is important in studies of, for example …
the system are treated at different level of theory is important in studies of, for example …
Transferable Potential Function for Flexible H2O Molecules Based on the Single-Center Multipole Expansion
A potential function is presented for describing a system of flexible H2O molecules based on
the single-center multipole expansion (SCME) of the electrostatic interaction. The model …
the single-center multipole expansion (SCME) of the electrostatic interaction. The model …
Polarizable Embedding with a Transferable H2O Potential Function II: Application to (H2O)n Clusters and Liquid Water
The incorporation of polarization in multiscale quantum-mechanics/molecular-mechanics
(QM/MM) simulations is important for a variety of applications, for example, charge-transfer …
(QM/MM) simulations is important for a variety of applications, for example, charge-transfer …
Hybrid molecular dynamics for elucidating cooperativity between halogen bond and water molecules during the interaction of p53-Y220C and the PhiKan5196 …
T Dong, H Peng, X He, X Wang, J Gao - Frontiers in Chemistry, 2020 - frontiersin.org
The cooperativity between hydrogen and halogen bonds plays an important role in rational
drug design. However, mimicking the dynamic cooperation between these bonds is a …
drug design. However, mimicking the dynamic cooperation between these bonds is a …
[PDF][PDF] Autonomous Construction of Quantum Hybrid Models for Biochemical Applications
KS Csizi - 2023 - research-collection.ethz.ch
Quantum mechanics/molecular mechanics (QM/MM) hybrid models allow one to address
chemical phenomena in complex molecular environments at the nanometer scale. This is …
chemical phenomena in complex molecular environments at the nanometer scale. This is …
[PDF][PDF] Nuclear quantum effects in solid ater: ne insights from computational modeling
S Rasti - 2022 - scholarlypublications …
Solid water, commonly referred to as ice, is ubiquitous throughout the universe as a material
with many unique properties. Ice plays an important role for cloud formation on earth and …
with many unique properties. Ice plays an important role for cloud formation on earth and …