[HTML][HTML] Software for the frontiers of quantum chemistry: An overview of developments in the Q-Chem 5 package

E Epifanovsky, ATB Gilbert, X Feng, J Lee… - The Journal of …, 2021 - pubs.aip.org
This article summarizes technical advances contained in the fifth major release of the Q-
Chem quantum chemistry program package, covering developments since 2015. A …

[HTML][HTML] Recent advances in green synthesized nanoparticles: From production to application

A Hosseingholian, SD Gohari, F Feirahi… - Materials Today …, 2023 - Elsevier
With the increasing concern over the environmental impact of conventional chemical
methods, environmentally friendly processes, commonly known as green chemistry, for the …

GPUMD: A package for constructing accurate machine-learned potentials and performing highly efficient atomistic simulations

Z Fan, Y Wang, P Ying, K Song, J Wang… - The Journal of …, 2022 - pubs.aip.org
We present our latest advancements of machine-learned potentials (MLPs) based on the
neuroevolution potential (NEP) framework introduced in Fan et al.[Phys. Rev. B 104, 104309 …

Discovery and rational engineering of PET hydrolase with both mesophilic and thermophilic PET hydrolase properties

H Hong, D Ki, H Seo, J Park, J Jang, KJ Kim - Nature communications, 2023 - nature.com
Excessive polyethylene terephthalate (PET) waste causes a variety of problems. Extensive
research focused on the development of superior PET hydrolases for PET biorecycling has …

Anton 3: twenty microseconds of molecular dynamics simulation before lunch

DE Shaw, PJ Adams, A Azaria, JA Bank… - Proceedings of the …, 2021 - dl.acm.org
Anton 3 is the newest member in a family of supercomputers specially designed for atomic-
level simulation of molecules relevant to biology (eg, DNA, proteins, and drug molecules) …

Bioinformatics approaches to discovering food-derived bioactive peptides: Reviews and perspectives

Z Du, J Comer, Y Li - TrAC Trends in Analytical Chemistry, 2023 - Elsevier
Food-derived bioactive peptides (FBPs) are gaining interest due to their great potential in
agricultural byproduct valorization and high-activity peptide screening. The introduction of …

SwissParam 2023: a modern web-based tool for efficient small molecule parametrization

M Bugnon, M Goullieux, UF Röhrig… - Journal of Chemical …, 2023 - ACS Publications
Most steps of drug discovery are now routinely supported and accelerated by computer-
aided drug design tools. Among them, structure-based approaches use the three …

Ligand recognition and G-protein coupling of trace amine receptor TAAR1

Z Xu, L Guo, J Yu, S Shen, C Wu, W Zhang, C Zhao… - Nature, 2023 - nature.com
Trace-amine-associated receptors (TAARs), a group of biogenic amine receptors, have
essential roles in neurological and metabolic homeostasis. They recognize diverse …

Elasto-inertial turbulence

Y Dubief, VE Terrapon, B Hof - Annual Review of Fluid …, 2023 - annualreviews.org
The dissolution of minute concentration of polymers in wall-bounded flows is well-known for
its unparalleled ability to reduce turbulent friction drag. Another phenomenon, elasto-inertial …

GROMACS in the cloud: A global supercomputer to speed up alchemical drug design

C Kutzner, C Kniep, A Cherian… - Journal of Chemical …, 2022 - ACS Publications
We assess costs and efficiency of state-of-the-art high-performance cloud computing and
compare the results to traditional on-premises compute clusters. Our use case is atomistic …