[HTML][HTML] Solvated interaction energy: from small-molecule to antibody drug design

EO Purisima, CR Corbeil, F Gaudreault… - Frontiers in Molecular …, 2023 - frontiersin.org
Scoring functions are ubiquitous in structure-based drug design as an aid to predicting
binding modes and estimating binding affinities. Ideally, a scoring function should be …

[HTML][HTML] Identification mechanism of BACE1 on inhibitors probed by using multiple separate molecular dynamics simulations and comparative calculations of binding …

Y Wang, F Yang, D Yan, Y Zeng, B Wei, J Chen, W He - Molecules, 2023 - mdpi.com
β-amyloid cleaving enzyme 1 (BACE1) is regarded as an important target of drug design
toward the treatment of Alzheimer's disease (AD). In this study, three separate molecular …

DeepWEST: Deep learning of kinetic models with the Weighted Ensemble Simulation Toolkit for enhanced sampling

AA Ojha, S Thakur, SH Ahn… - Journal of chemical theory …, 2023 - ACS Publications
Recent advances in computational power and algorithms have enabled molecular dynamics
(MD) simulations to reach greater time scales. However, for observing conformational …

Structural and energetic basis of interaction between human estrogen-related receptor γ and environmental endocrine disruptors from multiple molecular dynamics …

L Chen, X Huang, Y Li, B Zhao, M Liang… - Journal of Hazardous …, 2023 - Elsevier
Environmental endocrine disruptors (EEDs), a class of molecules that are widespread in our
environment, may adversely affect the endocrine system. Exploring the interactions between …

Mutations in the receptor-binding domain of human SARS CoV-2 spike protein increases its affinity to bind human ACE-2 receptor

GKRS Naresh, L Guruprasad - Journal of Biomolecular Structure …, 2023 - Taylor & Francis
The severe acute respiratory syndrome virus-2 (SARS CoV-2) infection has resulted in the
current global pandemic. The binding of SARS CoV-2 spike protein receptor-binding domain …

Mangiferin is a new potential antimalarial and anticancer drug for targeting serine hydroxymethyltransferase

S Maenpuen, P Mee-Udorn, C Pinthong… - Archives of Biochemistry …, 2023 - Elsevier
Mangiferin, a polyphenolic xanthone glycoside found in various botanical sources, including
mango (Mangifera indica L.) leaves, can exhibit a variety of bioactivities. Although …

Computational Prediction of 3, 5-Diaryl-1H-Pyrazole and spiropyrazolines derivatives as potential acetylcholinesterase inhibitors for alzheimer disease treatment by …

MA El Alaouy, M Alaqarbeh, M Ouabane… - Journal of …, 2023 - Taylor & Francis
The efficacy of 40 synthesized variants of 3, 5-diaryl-1H-pyrazole and spiropyrazoline'
derivatives as acetylcholinesterase inhibitors is verified using a quantitative three …

In Silico and In Vitro Potential of FDA-Approved Drugs for Antimalarial Drug Repurposing against Plasmodium Serine Hydroxymethyltransferases

P Mee-Udorn, K Phiwkaow, R Tinikul, K Sanachai… - ACS …, 2023 - ACS Publications
Malaria has spread in many countries, with a 12% increase in deaths after the coronavirus
disease 2019 pandemic. Malaria is one of the most concerning diseases in the Greater …

Investigation of Solid Formation Enthalpy and Molecular Mechanics Energies of Amino Acids via Force Field Approach

L SONGUR, O ORHAN, S OZGEN - Bitlis Eren Üniversitesi Fen …, 2023 - dergipark.org.tr
Accurate determination of the thermodynamic and molecular mechanical properties of
amino acids will contribute to a better understanding of their folding mechanisms. In this …