Molecular docking: shifting paradigms in drug discovery

L Pinzi, G Rastelli - International journal of molecular sciences, 2019 - mdpi.com
Molecular docking is an established in silico structure-based method widely used in drug
discovery. Docking enables the identification of novel compounds of therapeutic interest …

Molecular docking: challenges, advances and its use in drug discovery perspective

S Saikia, M Bordoloi - Current drug targets, 2019 - ingentaconnect.com
Molecular docking is a process through which small molecules are docked into the
macromolecular structures for scoring its complementary values at the binding sites. It is a …

Structural basis for strychnine activation of human bitter taste receptor TAS2R46

W Xu, L Wu, S Liu, X Liu, X Cao, C Zhou, J Zhang, Y Fu… - Science, 2022 - science.org
Taste sensing is a sophisticated chemosensory process, and bitter taste perception is
mediated by type 2 taste receptors (TAS2Rs), or class TG protein–coupled receptors …

DynamicBind: Predicting ligand-specific protein-ligand complex structure with a deep equivariant generative model

W Lu, J Zhang, W Huang, Z Zhang, X Jia… - Nature …, 2024 - nature.com
While significant advances have been made in predicting static protein structures, the
inherent dynamics of proteins, modulated by ligands, are crucial for understanding protein …

Protein and ligand preparation: parameters, protocols, and influence on virtual screening enrichments

G Madhavi Sastry, M Adzhigirey, T Day… - Journal of computer …, 2013 - Springer
Abstract Structure-based virtual screening plays an important role in drug discovery and
complements other screening approaches. In general, protein crystal structures are …

Fragment‐based drug discovery—the importance of high‐quality molecule libraries

M Bon, A Bilsland, J Bower, K McAulay - Molecular Oncology, 2022 - Wiley Online Library
Fragment‐based drug discovery (FBDD) is now established as a complementary approach
to high‐throughput screening (HTS). Contrary to HTS, where large libraries of drug‐like …

Using Data Science for Mechanistic Insights and Selectivity Predictions in a Non-Natural Biocatalytic Reaction

HD Clements, AR Flynn, BT Nicholls… - Journal of the …, 2023 - ACS Publications
The study of non-natural biocatalytic transformations relies heavily on empirical methods,
such as directed evolution, for identifying improved variants. Although exceptionally …

[HTML][HTML] An update on Drug Repurposing: Re-written saga of the drug's fate

HS Gns, GR Saraswathy, M Murahari… - Biomedicine & …, 2019 - Elsevier
Drug repurposing is an unconventional drug discovery approach to explore new therapeutic
benefits of existing, shelved and the drugs in clinical trials. This approach is currently …

Rational approaches to improving selectivity in drug design

DJ Huggins, W Sherman, B Tidor - Journal of medicinal chemistry, 2012 - ACS Publications
Appropriate tuning of binding selectivity is a primary objective in the discovery and
optimization of a compound on the path toward developing a drug. The environment in …

Principles and overview of sampling methods for modeling macromolecular structure and dynamics

T Maximova, R Moffatt, B Ma, R Nussinov… - PLoS computational …, 2016 - journals.plos.org
Investigation of macromolecular structure and dynamics is fundamental to understanding
how macromolecules carry out their functions in the cell. Significant advances have been …