QM/AMOEBA description of properties and dynamics of embedded molecules

M Nottoli, M Bondanza, P Mazzeo… - Wiley …, 2023 - Wiley Online Library
We describe the development, implementation, and application of a polarizable QM/MM
strategy, based on the AMOEBA polarizable force field, for calculating molecular properties …

[HTML][HTML] Hybrid QM/classical models: Methodological advances and new applications

F Lipparini, B Mennucci - Chemical Physics Reviews, 2021 - pubs.aip.org
Hybrid methods that combine quantum mechanical descriptions with classical models are
very popular in molecular modeling. Such a large diffusion reflects their effectiveness, which …

Unraveling Water Solvation Effects with Quantum Mechanics/Molecular Mechanics Semiclassical Vibrational Spectroscopy: The Case of Thymidine

D Moscato, G Mandelli, M Bondanza… - Journal of the …, 2024 - ACS Publications
We introduce a quantum mechanics/molecular mechanics semiclassical method for studying
the solvation process of molecules in water at the nuclear quantum mechanical level with …

Trajectory surface hopping for a polarizable embedding QM/MM formulation

M Bondanza, B Demoulin, F Lipparini… - The Journal of …, 2022 - ACS Publications
We present the implementation of trajectory surface-hopping nonadiabatic dynamics for a
polarizable embedding QM/MM formulation. Time-dependent density functional theory was …

Absorption properties of large complex molecular systems: the DFTB/fluctuating charge approach

P Lafiosca, S Gómez, T Giovannini… - Journal of Chemical …, 2022 - ACS Publications
We report on the first formulation of a novel polarizable QM/MM approach, where the density
functional tight binding (DFTB) is coupled to the fluctuating charge (FQ) force field. The …

Embedding Beyond Electrostatics: The Extended Polarizable Density Embedding Model

W Van den Heuvel, P Reinholdt… - The Journal of Physical …, 2023 - ACS Publications
The polarizable density embedding (PDE) model is a focused QM/QM fragment-based
embedding model designed to model solvation effects on molecular properties. We extend …

Linearly scaling computation of ddPCM solvation energy and forces using the fast multipole method

A Mikhalev, M Nottoli, B Stamm - The Journal of Chemical Physics, 2022 - pubs.aip.org
This paper proposes the first linear scaling implementation for the domain decomposition
approach of the polarizable continuum model (ddPCM) for the computation of the solvation …

Combining multilevel Hartree–Fock and multilevel coupled cluster approaches with molecular mechanics: a study of electronic excitations in solutions

L Goletto, T Giovannini, SD Folkestad… - Physical Chemistry …, 2021 - pubs.rsc.org
We investigate the coupling of different quantum-embedding approaches with a third
molecular-mechanics layer, which can be either polarizable or non-polarizable. In particular …

Coarse-Graining ddCOSMO through an Interface between Tinker and the ddX Library

M Nottoli, A Mikhalev, B Stamm… - The Journal of Physical …, 2022 - ACS Publications
The domain decomposition conductor-like screening model is an efficient way to compute
the solvation energy of solutes within a polarizable continuum medium in a linear scaling …

[HTML][HTML] An enhanced sampling QM/AMOEBA approach: The case of the excited state intramolecular proton transfer in solvated 3-hydroxyflavone

M Nottoli, M Bondanza, F Lipparini… - The Journal of Chemical …, 2021 - pubs.aip.org
We present an extension of the polarizable quantum mechanical (QM)/AMOEBA approach
to enhanced sampling techniques. This is achieved by connecting the enhanced sampling …