Concepts and core principles of fragment-based drug design

P Kirsch, AM Hartman, AKH Hirsch, M Empting - Molecules, 2019 - mdpi.com
In this review, a general introduction to fragment-based drug design and the underlying
concepts is given. General considerations and methodologies ranging from library …

Mapping the efficiency and physicochemical trajectories of successful optimizations

RJ Young, PD Leeson - Journal of Medicinal Chemistry, 2018 - ACS Publications
The practices and tactics employed in successful optimizations are examined, judged from
the trajectories of ligand efficiency and property evolution. A wide range of targets is …

Exploring protein hotspots by optimized fragment pharmacophores

D Bajusz, WS Wade, G Satała, AJ Bojarski… - Nature …, 2021 - nature.com
Fragment-based drug design has introduced a bottom-up process for drug development,
with improved sampling of chemical space and increased effectiveness in early drug …

Lead identification of 8-(methylamino)-2-oxo-1, 2-dihydroquinoline derivatives as DNA gyrase inhibitors: hit-to-lead generation involving thermodynamic evaluation

F Ushiyama, H Amada, T Takeuchi… - ACS …, 2020 - ACS Publications
DNA gyrase and topoisomerase IV are well-validated pharmacological targets, and
quinolone antibacterial drugs are marketed as their representative inhibitors. However, in …

Screening and Biological Evaluation of Soluble Epoxide Hydrolase Inhibitors: Assessing the Role of Hydrophobicity in the Pharmacophore-Guided Search of Novel …

J Vázquez, T Ginex, A Herrero… - Journal of chemical …, 2023 - ACS Publications
The human soluble epoxide hydrolase (sEH) is a bifunctional enzyme that modulates the
levels of regulatory epoxy lipids. The hydrolase activity is carried out by a catalytic triad …

Broad-scale analysis of thermodynamic signatures in medicinal chemistry: are enthalpy-favored binders the better development option?

G Klebe - Drug Discovery Today, 2019 - Elsevier
Highlights•Thermodynamic signature render ligands with enthalpy-dominated profile as
superior.•Chagrin followed initial euphoria as thermodynamics were evaluated on …

Effect of Water Networks On Ligand Binding: Computational Predictions vs Experiments

TV Szalai, D Bajusz, R Börzsei, BZ Zsidó… - Journal of chemical …, 2024 - ACS Publications
Rational drug design focuses on the explanation and prediction of complex formation
between therapeutic targets and small-molecule ligands. As a third and often overlooked …

How to Find a Fragment: Methods for Screening and Validation in Fragment‐Based Drug Discovery

T Kirkman, C dos Santos Silva, M Tosin… - …, 2024 - Wiley Online Library
Fragment‐based drug discovery (FBDD) is a crucial strategy for developing new drugs that
have been applied to diverse targets, from neglected infectious diseases to cancer. With at …

Thermodynamic profiling for fragment-based lead discovery and optimization

GG Ferenczy, GM Keserű - Expert Opinion on Drug Discovery, 2020 - Taylor & Francis
Introduction: The enthalpic and entropic components of the ligand–protein binding free
energy reflect the type and quality of the interactions and relate to the physicochemical …

Mass spectrometry for fragment screening

DSH Chan, AJ Whitehouse, AG Coyne… - Essays in …, 2017 - portlandpress.com
Fragment-based approaches in chemical biology and drug discovery have been widely
adopted worldwide in both academia and industry. Fragment hits tend to interact weakly with …