Abstract
The application of quantum mechanics (QM) / molecular mechanics (MM) models for studying dynamics in complex systems is nowadays well established. However, their significant limitation is the high computational cost, which restricts their use for larger systems and long-timescale processes. We propose a machine-learning (ML) based approach to study the dynamics of solvated molecules on the ground- and excited-state potential energy surfaces. Our ML model is trained on QM/MM calculations and is designed to predict energies and forces within an electrostatic embedding framework. We built a socket-based interface of our machinery with AMBER to run ML/MM molecular dynamics simulations. As an application, we investigated the excited state intramolecular proton transfer of 3-hydroxyflavone in two different solvents: methanol and methylcyclohexane. Our ML/MM simulations accurately distinguished between the two solvents, effectively reproducing the solvent effects on proton transfer dynamics.
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Supplementary Information
Description
Supplementary Information available: Derivatives of kernels; learning curves; full force plots; errors along the reaction coordinate; comparison between ML/MM and QM/MM trajectories; trajectory stability; timings; fitting of the PT curves.
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Title
ML-server
Description
ML-server is a Python script that allows sending energies and gradients to Sander (Amber) to perform ML/MM simulations.
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3-hydroxyflavone models to be used with ML-server
Description
3-hydroxyflavone models to be used in ML-server for ground and excited state ML/MM simulations.
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