Back to Search
Start Over
Ligand binding free energy and kinetics calculation in 2020
- Source :
- WIREs Computational Molecular Science. 10
- Publication Year :
- 2020
- Publisher :
- Wiley, 2020.
-
Abstract
- Ligand/protein binding (LPB) is a major topic in medicine, chemistry and biology. Since the advent of computers, many scientists have put efforts in developing theoretical models that could decode the alphabet of the LPB interaction. The success of this task passes by the resolution of the molecular mechanism of LPB. In the past century, major attention was dedicated to the thermodynamics of LPB, while more recent studies have revealed that ligand (un)binding kinetics is at least as important as ligand binding thermodynamics in determining the drug in vivo efficacy. In the present review, we introduce the most widely used computational methods to study LPB thermodynamics and kinetics. It is important to say that no method outperforms another, they all have pros and cons and the choice of the user should take carefully into account the system under investigation, the available structural and experimental data, and the goal of the research. A perspective on future directions of method development and research on LPB concludes the discussion. This article is categorized under: Molecular and Statistical Mechanics > Free Energy Methods Structure and Mechanism > Computational Biochemistry and Biophysics Molecular and Statistical Mechanics > Molecular Dynamics and Monte-Carlo Methods.
- Subjects :
- 010304 chemical physics
Chemistry
Kinetics
ligand binding thermodynamic
molecular docking
funnel-metadynamic
010402 general chemistry
01 natural sciences
Biochemistry
molecular dynamics
0104 chemical sciences
Computer Science Applications
Computational Mathematics
Molecular dynamics
ligand binding free energy
ligand binding kinetic
Computational chemistry
free energy calculation
0103 physical sciences
Materials Chemistry
Physical and Theoretical Chemistry
Energy (signal processing)
Subjects
Details
- ISSN :
- 17590884 and 17590876
- Volume :
- 10
- Database :
- OpenAIRE
- Journal :
- WIREs Computational Molecular Science
- Accession number :
- edsair.doi.dedup.....44324d3766a5cad888fb2984e11daeec