[HTML][HTML] Recent advances in utility of artificial intelligence towards multiscale colloidal based materials design

AA Moud - Colloid and Interface Science Communications, 2022 - Elsevier
Colloidal material design necessitates a collection of computer approaches ranging from
quantum chemistry to molecular dynamics and continuum modeling. Machine learning (ML) …

Advances in the discovery of new chemotypes through ultra-large library docking

F Potlitz, A Link, L Schulig - Expert opinion on drug discovery, 2023 - Taylor & Francis
Introduction The size and complexity of virtual screening libraries in drug discovery have
skyrocketed in recent years, reaching up to multiple billions of accessible compounds …

The Role of Force Fields and Water Models in Protein Folding and Unfolding Dynamics

ALM Fischer, A Tichy, J Kokot… - Journal of Chemical …, 2024 - ACS Publications
Protein folding is a fascinating, not fully understood phenomenon in biology. Molecular
dynamics (MD) simulations are an invaluable tool to study conformational changes in …

Customized self-assembled bimetallic hybrid nanoflowers promoting the robustness of D-allulose 3-epimerase

X Gao, S Fang, X Ma, T Wang, C Li, F Lu… - Chemical Engineering …, 2024 - Elsevier
Enzyme-based hybrid nanoflowers, a green biocatalyst technology employing metal ions as
the main driving force of enzyme immobilization without participating in the catalytic reaction …

Mechanochemical fabrication of geopolymer composites based on the reinforcement effect of microfibrillated cellulose

Y Zheng, Z Wang, Z Wan, X Yang, F Lin, Y Chen… - Ceramics …, 2023 - Elsevier
In this study, microfibrillated cellulose-reinforced geopolymer organic/inorganic hybrid
materials, were prepared via a simple green mechanochemical method. The interaction …

Comparison of non-covalent binding interactions of six caffeoylquinic acids with β-lactoglobulin: Spectroscopic analysis, molecular docking and embedding of …

J Liu, G Song, L Zhou, D Wang, T Yuan, L Li, G He… - Food …, 2023 - Elsevier
In this study, we systematically compared the differences in the interactions of β-
lactoglobulin (LG) with three mono-caffeoylquinic acids (MCQAs: 3-CQA, 4-CQA, and 5 …

Characterizing protein protonation microstates using Monte Carlo sampling

U Khaniya, J Mao, RJ Wei… - The Journal of Physical …, 2022 - ACS Publications
Proteins are polyelectrolytes with acidic and basic amino acids Asp, Glu, Arg, Lys, and His,
making up≈ 25% of the residues. The protonation state of residues, cofactors, and ligands …

Uncovering water effects in protein–ligand recognition: importance in the second hydration shell and binding kinetics

W Chen, H He, J Wang, J Wang… - Physical Chemistry …, 2023 - pubs.rsc.org
Developing a ligand with high affinity for a specific protein target is essential for drug design,
and water molecules are well known to play a key role in protein–drug recognition …

[HTML][HTML] Explicit solvation thermodynamics in ionic solution: extending grid inhomogeneous solvation theory to solvation free energy of salt–water mixtures

F Waibl, J Kraml, ML Fernández-Quintero… - Journal of Computer …, 2022 - Springer
Hydration thermodynamics play a fundamental role in fields ranging from the
pharmaceutical industry to environmental research. Numerous methods exist to predict …

Free Energy Density of a Fluid and Its Role in Solvation and Binding

MK Gilson, T Kurtzman - Journal of Chemical Theory and …, 2024 - ACS Publications
The concept that a fluid has a position-dependent free energy density appears in the
literature but has not been fully developed or accepted. We set this concept on an …