Structure-based virtual screening for ligands of G protein–coupled receptors: what can molecular docking do for you?

F Ballante, AJ Kooistra, S Kampen, C de Graaf… - Pharmacological …, 2021 - ASPET
G protein–coupled receptors (GPCRs) constitute the largest family of membrane proteins in
the human genome and are important therapeutic targets. During the last decade, the …

Improvements, trends, and new ideas in molecular docking: 2012–2013 in review

E Yuriev, J Holien, PA Ramsland - Journal of Molecular …, 2015 - Wiley Online Library
Molecular docking is a computational method for predicting the placement of ligands in the
binding sites of their receptor (s). In this review, we discuss the methodological …

Exploring G protein-coupled receptors (GPCRs) ligand space via cheminformatics approaches: impact on rational drug design

S Basith, M Cui, SJY Macalino, J Park… - Frontiers in …, 2018 - frontiersin.org
The primary goal of rational drug discovery is the identification of selective ligands which act
on single or multiple drug targets to achieve the desired clinical outcome through the …

NMR as a “gold standard” method in drug design and discovery

AH Emwas, K Szczepski, BG Poulson, K Chandra… - Molecules, 2020 - mdpi.com
Studying disease models at the molecular level is vital for drug development in order to
improve treatment and prevent a wide range of human pathologies. Microbial infections are …

Predicting binding affinities for GPCR ligands using free-energy perturbation

EB Lenselink, J Louvel, AF Forti… - ACS …, 2016 - ACS Publications
The rapid growth of structural information for G-protein-coupled receptors (GPCRs) has led
to a greater understanding of their structure, function, selectivity, and ligand binding …

Adenosine A2A receptor antagonists: from caffeine to selective non‐xanthines

KA Jacobson, ZG Gao, P Matricon… - British journal of …, 2022 - Wiley Online Library
A long evolution of knowledge of the psychostimulant caffeine led in the 1960s to another
purine natural product, adenosine and its A2A receptor. Adenosine is a short‐lived …

A bright future for fragment-based drug discovery: what does it hold?

C Jacquemard, E Kellenberger - Expert opinion on drug discovery, 2019 - Taylor & Francis
In the last 20 years, Fragment-Based Drug Discovery (FBDD) has established itself as a key
approach for finding high-quality lead candidates [1]. Two drugs on the market today …

Evaluating the use of absolute binding free energy in the fragment optimisation process

I Alibay, A Magarkar, D Seeliger… - Communications Chemistry, 2022 - nature.com
Key to the fragment optimisation process within drug design is the need to accurately
capture the changes in affinity that are associated with a given set of chemical modifications …

Alchemical Free Energy Calculations on Membrane-Associated Proteins

M Papadourakis, H Sinenka, P Matricon… - Journal of Chemical …, 2023 - ACS Publications
Membrane proteins have diverse functions within cells and are well-established drug
targets. The advances in membrane protein structural biology have revealed drug and lipid …

Recent advances and applications of molecular docking to G protein-coupled receptors

D Bartuzi, AA Kaczor, KM Targowska-Duda… - Molecules, 2017 - mdpi.com
The growing number of studies on G protein-coupled receptors (GPCRs) family are a source
of noticeable improvement in our understanding of the functioning of these proteins. GPCRs …