Using metadynamics to explore complex free-energy landscapes
Metadynamics is an atomistic simulation technique that allows, within the same framework,
acceleration of rare events and estimation of the free energy of complex molecular systems …
acceleration of rare events and estimation of the free energy of complex molecular systems …
QM/MM methods for biomolecular systems
HM Senn, W Thiel - Angewandte Chemie International Edition, 2009 - Wiley Online Library
Two are better than one: Quantum mechanics/molecular mechanics (QM/MM) methods are
the state‐of‐the‐art computational technique for treating reactive and other “electronic” …
the state‐of‐the‐art computational technique for treating reactive and other “electronic” …
Hydrotropic solubilization of zinc acetates for sustainable aqueous battery electrolytes
Among the more sustainable battery chemistries, the aqueous zinc system is receiving
renewed interest. To accelerate the practical applications of this promising technology, an …
renewed interest. To accelerate the practical applications of this promising technology, an …
[PDF][PDF] Amber 10
Amber is the collective name for a suite of programs that allow users to carry out molecular
dynamics simulations, particularly on biomolecules. None of the individual programs carries …
dynamics simulations, particularly on biomolecules. None of the individual programs carries …
Dynamic multinuclear sites formed by mobilized copper ions in NOx selective catalytic reduction
Copper ions exchanged into zeolites are active for the selective catalytic reduction (SCR) of
nitrogen oxides (NO x) with ammonia (NH3), but the low-temperature rate dependence on …
nitrogen oxides (NO x) with ammonia (NH3), but the low-temperature rate dependence on …
Oxygen evolution reaction over catalytic single-site Co in a well-defined brookite TiO2 nanorod surface
Efficient electrocatalysts for the oxygen evolution reaction (OER) are paramount to the
development of electrochemical devices for clean energy and fuel conversion. However, the …
development of electrochemical devices for clean energy and fuel conversion. However, the …
Metadynamics
Metadynamics is a powerful technique for enhancing sampling in molecular dynamics
simulations and reconstructing the free‐energy surface as a function of few selected …
simulations and reconstructing the free‐energy surface as a function of few selected …
Metadynamics: a method to simulate rare events and reconstruct the free energy in biophysics, chemistry and material science
Metadynamics is a powerful algorithm that can be used both for reconstructing the free
energy and for accelerating rare events in systems described by complex Hamiltonians, at …
energy and for accelerating rare events in systems described by complex Hamiltonians, at …
Using collective variables to drive molecular dynamics simulations
A software framework is introduced that facilitates the application of biasing algorithms to
collective variables of the type commonly employed to drive massively parallel molecular …
collective variables of the type commonly employed to drive massively parallel molecular …
Full atomistic reaction mechanism with kinetics for CO reduction on Cu (100) from ab initio molecular dynamics free-energy calculations at 298 K
A critical step toward the rational design of new catalysts that achieve selective and efficient
reduction of CO2 to specific hydrocarbons and oxygenates is to determine the detailed …
reduction of CO2 to specific hydrocarbons and oxygenates is to determine the detailed …