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Full-Text Articles in Chemistry
Preferential Binding Effects On Protein Structure And Dynamics Revealed By Coarse-Grained Monte Carlo Simulation, Ras B. Pandey, D.L. Jacobs, Barry L. Farmer
Preferential Binding Effects On Protein Structure And Dynamics Revealed By Coarse-Grained Monte Carlo Simulation, Ras B. Pandey, D.L. Jacobs, Barry L. Farmer
Faculty Publications
The effect of preferential binding of solute molecules within an aqueous solution on the structure and dynamics of the histone H3.1 protein is examined by a coarse-grained Monte Carlo simulation. The knowledge-based residue-residue and hydropathy-index-based residue-solvent interactions are used as input to analyze a number of local and global physical quantities as a function of the residue-solvent interaction strength (f). Results from simulations that treat the aqueous solution as a homogeneous effective solvent medium are compared to when positional fluctuations of the solute molecules are explicitly considered. While the radius of gyration (Rg) of the …