2023/01/06 by Yuanzhen Shao, Shao, Yuanzhen, Zhan Shao +3
Chemistry · Physics and Astronomy · #92C40 #Biological Physics (physics.bio-ph) #FOS: Physical sciences #Free Radicals and Antioxidants #Photochemistry and Electron Transfer Studies #Primary: 49Q10 #Secondary: 35J20 #Spectroscopy and Quantum Chemical Studies
paper · pdf · doi:10.48550/arxiv.2301.08560
openalex publication_date 2023/01/06 · openalex created_date 2025/10/10 · openalex updated_date 2026/07/28
ariational implicit solvation models (VISM) have gained extensive popularity in the molecular-level solvation analysis of biological systems due to their cost-effectiveness and satisfactory accuracy. Central in the construction of VISM is an interface separating the solute and the solvent. However, traditional sharp-interface VISMs fall short in adequately representing the inherent randomness of the solute-solvent interface, a consequence of thermodynamic fluctuations within the solute-solvent system. Given that experimentally observable quantities are ensemble-averaged, the computation of the ensemble average solvation energy (EASE)-the averaged solvation energy across all thermodynamic microscopic states-emerges as a key metric for reflecting thermodynamic fluctuations during solvation processes. This study introduces a novel approach to calculating the EASE. We devise two diffuse-interface VISMs: one within the classic Poisson-Boltzmann (PB) framework and another within the framework of size-modified PB theory, accounting for the finite-size effects. The construction of these models relies on a new diffuse interface definition u(x), which represents the probability of a point x found in the solute phase among all microstates. Drawing upon principles of statistical mechanics and geometric measure theory, we rigorously demonstrate that the proposed models effectively capture EASE during the solvation process. Moreover, preliminary analyses indicate that the size-modified EASE functional surpasses its counterpart based on classic PB theory across various analytic aspects. Our work is the first step towards calculating EASE through the utilization of diffuse-interface VISM. energy by using diffuse-interface VISMs.