Publication

Hybrid QM/MM Car-Parrinello simulations of catalytic and enzymatic reactions

2002
Journal Articles

Abstract

A review. First-principles mol. dynamics (Car-Parrinello) simulations based on d. functional theory have emerged as a powerful tool for the study of phys., chem. and biol. systems. At present, using parallel computers, systems of a few hundreds of atoms can be routinely investigated. By extending this method to a mixed quantum mech. - mol. mech. (QM/MM) hybrid scheme, the system size can be enlarged further. Such an approach is esp. attractive for the in situ investigation of chem. reactions that occur in a complex and heterogeneous environment. Here, we review some recent applications of hybrid Car-Parrinello simulations of chem. and biol. systems as illustrative examples of the current potential and limitations of this promising novel technique. [on SciFinder (R)]

Official source

https://infoscience.epfl.ch/entities/publication/f338e6d2-4ad4-4b7f-8b93-d2e6054d2c9d

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2002
Journal Articles

Abstract

Official source

https://infoscience.epfl.ch/entities/publication/f338e6d2-4ad4-4b7f-8b93-d2e6054d2c9d

About this result

Related concepts (25)

Density functional theory

Density-functional theory (DFT) is a computational quantum mechanical modelling method used in physics, chemistry and materials science to investigate the electronic structure (or nuclear structure) (principally the ground state) of many-body systems, in particular atoms, molecules, and the condensed phases. Using this theory, the properties of a many-electron system can be determined by using functionals, i.e. functions of another function. In the case of DFT, these are functionals of the spatially dependent electron density.

Parallel computing

Parallel computing is a type of computation in which many calculations or processes are carried out simultaneously. Large problems can often be divided into smaller ones, which can then be solved at the same time. There are several different forms of parallel computing: bit-level, instruction-level, data, and task parallelism. Parallelism has long been employed in high-performance computing, but has gained broader interest due to the physical constraints preventing frequency scaling.

Molecular dynamics

Molecular dynamics (MD) is a computer simulation method for analyzing the physical movements of atoms and molecules. The atoms and molecules are allowed to interact for a fixed period of time, giving a view of the dynamic "evolution" of the system. In the most common version, the trajectories of atoms and molecules are determined by numerically solving Newton's equations of motion for a system of interacting particles, where forces between the particles and their potential energies are often calculated using interatomic potentials or molecular mechanical force fields.

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