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] How exascale computing can shape drug design: A perspective from multiscale QM/MM molecular dynamics simulations and machine learning-aided …

G Rossetti, D Mandelli - Current Opinion in Structural Biology, 2024 - Elsevier
Molecular simulations are an essential asset in the first steps of drug design campaigns.
However, the requirement of high-throughput limits applications mainly to qualitative …

Computational Chemistry as Applied in Environmental Research: Opportunities and Challenges

C Sandoval-Pauker, S Yin, A Castillo… - ACS ES&T …, 2023 - ACS Publications
The constant development of computer systems and infrastructure has allowed
computational chemistry to become an important component of environmental chemistry …

Spike protein mutations and structural insights of pangolin lineage B. 1.1. 25 with implications for viral pathogenicity and ACE2 binding affinity

S Akter, JIN Oliveira, C Barton, MH Sarkar… - Scientific Reports, 2023 - nature.com
Abstract Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2), the causative
agent of COVID-19, is constantly evolving, requiring continuous genomic surveillance. In this …

[HTML][HTML] Quantum mechanical-based strategies in drug discovery: Finding the pace to new challenges in drug design

T Ginex, J Vázquez, C Estarellas, FJ Luque - Current Opinion in Structural …, 2024 - Elsevier
The expansion of the chemical space to tangible libraries containing billions of
synthesizable molecules opens exciting opportunities for drug discovery, but also …

Applications and Potential of In Silico Approaches for Psychedelic Chemistry

S Karabulut, H Kaur, JW Gauld - Molecules, 2023 - mdpi.com
Molecular-level investigations of the Central Nervous System have been revolutionized by
the development of computational methods, computing power, and capacity advances …

Quantum mechanics insights into melatonin and analogs binding to melatonin MT1 and MT2 receptors

G de Lima Menezes, K Sales Bezerra… - Scientific Reports, 2024 - nature.com
Melatonin receptors MT1 and MT2 are G protein-coupled receptors that mediate the effects
of melatonin, a hormone involved in circadian rhythms and other physiological functions …

Advancing molecular modeling and reverse vaccinology in broad-spectrum yellow fever virus vaccine development

OLT da Silva, MK da Silva, JF Rodrigues-Neto… - Scientific Reports, 2024 - nature.com
Yellow fever outbreaks are prevalent, particularly in endemic regions. Given the lack of an
established treatment for this disease, significant attention has been directed toward …

Protein structure and dynamics in the era of integrative structural biology

R Grandori - Frontiers in Biophysics, 2023 - frontiersin.org
Proteins carry out their biological activity as dynamic structures and populate in solution or in
biological membranes structural distributions with different degrees of heterogeneity. The …

From Origin to Current Methods: An Overview of Molecular Modeling Applied to Medicinal Chemistry in the Last 30 Years

VN Rocha, CMR Sant'Anna - Journal of the Brazilian Chemical …, 2024 - SciELO Brasil
Molecular modeling soon attracted the attention of Medicinal Chemistry researchers, given
the importance of molecular structure for understanding the mode of action and for …