ACS Omega · 2019 · 64 citations · 72 references
Natural SciencesBiochemistryBiophysicsMolecular BiophysicsStructural BiologyStructural BiophysicsChloride Channel BiophysicsLigand BindingMolecular DynamicsProtein DynamicsProtein PhosphorylationProtein StructureActivation Loop RegulationBinding Pocket DynamicsCation-chloride CotransportersCross-correlation AnalysisProtein Conformational ChangesProtein Phosphorylation DynamicsProtein Structural ChangesProtein-ligand Binding Dynamics
. The dynamic cross-correlation analysis shows that phosphorylation diminishes anticorrelated motions and increases correlated motions between different domains. Structural network analysis reveals that the phosphorylation causes structural rearrangements and shortens the communication path between the αC-helix and catalytic loop, making the binding pocket more suitable for accommodating the ligand. Overall, we have characterized the structural changes in the WNK kinase because of phosphorylation in the A-loop, which might help in designing rational drugs.
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VMD: Visual molecular dynamics
William Humphrey, Andrew Dalke, Klaus Schulten · Journal of Molecular Graphics · 1996 · 66.6K citations
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