Eicosanoids
PC Calder - Essays in Biochemistry, 2020 - portlandpress.com
This article describes the pathways of eicosanoid synthesis, eicosanoid receptors, the action
of eicosanoids in different physiological systems, the roles of eicosanoids in selected …
of eicosanoids in different physiological systems, the roles of eicosanoids in selected …
Oxidation of polyunsaturated fatty acids to produce lipid mediators
WW Christie, JL Harwood - Essays in biochemistry, 2020 - portlandpress.com
The chemistry, biochemistry, pharmacology and molecular biology of oxylipins (defined as a
family of oxygenated natural products that are formed from unsaturated fatty acids by …
family of oxygenated natural products that are formed from unsaturated fatty acids by …
Role of molecular dynamics and related methods in drug discovery
Molecular dynamics (MD) and related methods are close to becoming routine computational
tools for drug discovery. Their main advantage is in explicitly treating structural flexibility and …
tools for drug discovery. Their main advantage is in explicitly treating structural flexibility and …
Metadynamics
A Barducci, M Bonomi… - Wiley Interdisciplinary …, 2011 - Wiley Online Library
Metadynamics is a powerful technique for enhancing sampling in molecular dynamics
simulations and reconstructing the free‐energy surface as a function of few selected …
simulations and reconstructing the free‐energy surface as a function of few selected …
Ligand binding free-energy calculations with funnel metadynamics
S Raniolo, V Limongelli - Nature Protocols, 2020 - nature.com
The accurate resolution of the binding mechanism of a ligand to its molecular target is
fundamental to develop a successful drug design campaign. Free-energy calculations …
fundamental to develop a successful drug design campaign. Free-energy calculations …
Kinetics of protein–ligand unbinding: Predicting pathways, rates, and rate-limiting steps
The ability to predict the mechanisms and the associated rate constants of protein–ligand
unbinding is of great practical importance in drug design. In this work we demonstrate how a …
unbinding is of great practical importance in drug design. In this work we demonstrate how a …
Funnel metadynamics as accurate binding free-energy method
V Limongelli, M Bonomi… - Proceedings of the …, 2013 - National Acad Sciences
A detailed description of the events ruling ligand/protein interaction and an accurate
estimation of the drug affinity to its target is of great help in speeding drug discovery …
estimation of the drug affinity to its target is of great help in speeding drug discovery …
Molecular determinants of drug–receptor binding kinetics
It is increasingly appreciated that the rates at which drugs associate with and dissociate from
receptors—the binding kinetics—directly impact drug efficacy and safety. The molecular …
receptors—the binding kinetics—directly impact drug efficacy and safety. The molecular …
Enhancing important fluctuations: Rare events and metadynamics from a conceptual viewpoint
Atomistic simulations play a central role in many fields of science. However, their usefulness
is often limited by the fact that many systems are characterized by several metastable states …
is often limited by the fact that many systems are characterized by several metastable states …
Well-tempered metadynamics converges asymptotically
Metadynamics is a versatile and capable enhanced sampling method for the computational
study of soft matter materials and biomolecular systems. However, over a decade of …
study of soft matter materials and biomolecular systems. However, over a decade of …