Diffusion models of protein folding

Molecular Dynamics Simulation of the Antiamoebin Ion Channel: Linking Structure and Conductance

(2011) Michael A. Wilson et al.   BIOPHYSICAL JOURNAL

Obtaining fully dynamic coarse-grained models from MD

(2011) Pep Español et al.   PHYSICAL CHEMISTRY CHEMICAL PHYSICS

The Origin of Nonmonotonic Complex Behavior and the Effects of Nonnative Interactions on the Diffusive Properties of Protein Folding

(2010) Ronaldo J. Oliveira et al.   BIOPHYSICAL JOURNAL

How the diffusivity profile reduces the arbitrariness of protein folding free energies

(2010) M. Hinczewski et al.   JOURNAL OF CHEMICAL PHYSICS

Coordinate and time-dependent diffusion dynamics in protein folding

(2010) Ronaldo J. Oliveira et al.   METHODS

Protein folded states are kinetic hubs

(2010) G. R. Bowman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Atomic-Level Characterization of the Structural Dynamics of Proteins

(2010) D. E. Shaw et al.   SCIENCE

Is Protein Folding Sub-Diffusive?

(2010) Sergei V. Krivov   PLoS Computational Biology

Common Structural Transitions in Explicit-Solvent Simulations of Villin Headpiece Folding

(2009) Peter L. Freddolino et al.   BIOPHYSICAL JOURNAL

Proteins Fold by Subdiffusion of the Order Parameter

(2009) Amandeep K. Sangha et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Decoding the Pattern of Photon Colors in Single-Molecule FRET

(2009) Irina V. Gopich et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Experimental determination of upper bound for transition path times in protein folding from single-molecule photon-by-photon trajectories

(2009) H. S. Chung et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Coordinate-dependent diffusion in protein folding

(2009) R. B. Best et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Constructing the equilibrium ensemble of folding pathways from short off-equilibrium simulations

(2009) Frank Noé et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Downhill dynamics and the molecular rate of protein folding

(2008) Feng Liu et al.   CHEMICAL PHYSICS LETTERS

Protein folding studied by single-molecule FRET

(2008) Benjamin Schuler et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Coarse Master Equations for Peptide Folding Dynamics†

(2008) Nicolae-Viorel Buchete et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Chemical, physical, and theoretical kinetics of an ultrafast folding protein

(2008) J. Kubelka et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Diffusive reaction dynamics on invariant free energy profiles

(2008) S. V. Krivov et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Coarse-grained Models for Simulations of Multiprotein Complexes: Application to Ubiquitin Binding

(2007) Young C. Kim et al.   JOURNAL OF MOLECULAR BIOLOGY

The origins of asymmetry in the folding transition states of protein L and protein G

(2002) John Karanicolas et al.   PROTEIN SCIENCE