CHARMM: the biomolecular simulation program
Abstract CHARMM (Chemistry at HARvard Molecular Mechanics) is a highly versatile and
widely used molecular simulation program. It has been developed over the last three …
widely used molecular simulation program. It has been developed over the last three …
Reaction-rate theory: fifty years after Kramers
The calculation of rate coefficients is a discipline of nonlinear science of importance to much
of physics, chemistry, engineering, and biology. Fifty years after Kramers' seminal paper on …
of physics, chemistry, engineering, and biology. Fifty years after Kramers' seminal paper on …
Current status of transition-state theory
DG Truhlar, BC Garrett… - The Journal of physical …, 1996 - ACS Publications
We present an overview of the current status of transition-state theory and its
generalizations. We emphasize (i) recent improvements in available methodology for …
generalizations. We emphasize (i) recent improvements in available methodology for …
Langevin dynamics of peptides: The frictional dependence of isomerization rates of N‐acetylalanyl‐N′‐methylamide
RJ Loncharich, BR Brooks… - … : Original Research on …, 1992 - Wiley Online Library
The rate constant for the transition between the equatorial and axial conformations of N‐
acetylalanyl‐N′‐methylamide has been determined from Langevin dynamics (LD) …
acetylalanyl‐N′‐methylamide has been determined from Langevin dynamics (LD) …
Femtosecond solvation dynamics of water
THE timescale of the response of solvent molecules to electronic rearrangement of solute
molecules has a critical influence on the rates of chemical reactions in liquids1–10. In …
molecules has a critical influence on the rates of chemical reactions in liquids1–10. In …
Quantum Brownian motion: The functional integral approach
H Grabert, P Schramm, GL Ingold - Physics reports, 1988 - Elsevier
The quantum mechanical dynamics of a particle coupled to a heat bath is treated by
functional integral methods and a generalization of the Feynman-Vernon influence …
functional integral methods and a generalization of the Feynman-Vernon influence …
The protein folding 'speed limit'
How fast can a protein possibly fold? This question has stimulated experimentalists to seek
fast folding proteins and to engineer them to fold even faster. Proteins folding at or near the …
fast folding proteins and to engineer them to fold even faster. Proteins folding at or near the …
Extending the time scale in atomistic simulation of materials
▪ Abstract Obtaining a good atomistic description of diffusion dynamics in materials has been
a daunting task owing to the time-scale limitations of the molecular dynamics method. We …
a daunting task owing to the time-scale limitations of the molecular dynamics method. We …
Enhancing important fluctuations: Rare events and metadynamics from a conceptual viewpoint
Atomistic simulations play a central role in many fields of science. However, their usefulness
is often limited by the fact that many systems are characterized by several metastable states …
is often limited by the fact that many systems are characterized by several metastable states …
A method for accelerating the molecular dynamics simulation of infrequent events
AF Voter - The Journal of chemical physics, 1997 - pubs.aip.org
For infrequent-event systems, transition state theory (TST) is a powerful approach for
overcoming the time scale limitations of the molecular dynamics (MD) simulation method …
overcoming the time scale limitations of the molecular dynamics (MD) simulation method …