An imbalance in the force: the need for standardized benchmarks for molecular simulation
K Kriz, L Schmidt, AT Andersson, MM Walz… - Journal of Chemical …, 2023 - ACS Publications
Force fields (FFs) for molecular simulation have been under development for more than half
a century. As with any predictive model, rigorous testing and comparisons of models …
a century. As with any predictive model, rigorous testing and comparisons of models …
Martini on the rocks: can a coarse-grained force field model crystals?
Computational chemistry is an important tool in numerous scientific disciplines, including
drug discovery and structural biology. Coarse-grained models offer simple representations …
drug discovery and structural biology. Coarse-grained models offer simple representations …
Template-Directed In Crystallo Photopolymerization of a Donor–Acceptor Cyclopropane: When Everything Falls into Place!
M Giorgi, K Masson, S Chentouf… - Journal of the …, 2024 - ACS Publications
A single-crystal-to-single-crystal solid-state reaction of vinylogous donor–acceptor
cyclopropanes is documented. The enantiospecific synthesis of new products, distinct from …
cyclopropanes is documented. The enantiospecific synthesis of new products, distinct from …
Impact of Combination Rules, Level of Theory, and Potential Function on the Modeling of Gas-and Condensed-Phase Properties of Noble Gases
K Kriz, PJ van Maaren… - Journal of Chemical …, 2024 - ACS Publications
The systems of noble gases are particularly instructive for molecular modeling due to the
elemental nature of their interactions. They do not normally form bonds nor possess a …
elemental nature of their interactions. They do not normally form bonds nor possess a …
Quantification of Anisotropy in Exchange and Dispersion Interactions: A Simple Model for Physics-Based Force Fields
K Kříž, D Van der Spoel - The Journal of Physical Chemistry …, 2024 - ACS Publications
In some compounds, exchange repulsion is orientation dependent. However, in contrast to
quantum chemical methods that treat exchange explicitly, empirical models assume …
quantum chemical methods that treat exchange explicitly, empirical models assume …
gmXtal: Cooking crystals with GROMACS
Molecular dynamics (MD) simulations are routinely performed of biomolecules in solution,
because this is their native environment. However, the structures used in such simulations …
because this is their native environment. However, the structures used in such simulations …
Simulations of Amyloid-Forming Peptides in the Crystal State
There still is little treatment available for amyloid diseases, despite their significant impact on
individuals and the social and economic implications for society. One reason for this is that …
individuals and the social and economic implications for society. One reason for this is that …
Classical Molecular Dynamics Simulation of Molecular Crystals and Materials: Old Lessons and New Perspectives
The basics and state-of-the-art methods for the computer simulation of molecular materials
with classical physics are reviewed. The special features of the Milano Chemistry Molecular …
with classical physics are reviewed. The special features of the Milano Chemistry Molecular …