JACS Au · 2021 · 52 citations · 85 references
PharmacyChemistryMolecular BiologyComputational ChemistryMolecular RecognitionStructural BiologyBinding ThermodynamicsBiomolecular ThermodynamicsLigand BindingProtein-ligand BindingProtein-ligand RecognitionReceptor-ligand InteractionsCarbohydrate Recognition DomainsConformational Entropy ReductionEntropy-enthalpy CompensationLigand Binding AffinityLigand Binding ThermodynamicsLigand SolvationProtein-ligand Binding ThermodynamicsSolvation Entropy
bound complex has less unfavorable solvation entropy compared to the other two complexes. Thus, the results indicate compensatory effects from ligand conformational entropy and water entropy, on the one hand, and protein conformational entropy, on the other hand. Taken together, these different contributions amount to entropy-entropy compensation among the system components involved in ligand binding to a target protein.
85
Molecular dynamics with coupling to an external bath
Herman J. C. Berendsen, Johan P. M. Postma, Wilfred F. van Gunsteren et al. · The Journal of Chemical Physics · 1984 · 31K citations · Full text
Natural Sciences, Chemistry, Physics +17
Features and development of <i>Coot</i>
Paul Emsley, Bernhard Lohkamp, W. G. Scott et al. · Acta Crystallographica Section D Biological Crystallography · 2010 · 29.6K citations · Full text