(Q36277713)

13 August 2017

Diffusion models of protein folding (English)

1 reference

13 August 2017

0 references

Robert B Best

1

0 references

Gerhard Hummer

object named as

Gerhard Hummer

series ordinal

2

0 references

language of work or name

English

0 references

publication date

15 August 2011

1 reference

Physical Chemistry Chemical Physics

13 August 2017

1 reference

13 August 2017

13

1 reference

13 August 2017

38

1 reference

13 August 2017

16902-16911

1 reference

Molecular dynamics simulation of the antiamoebin ion channel: linking structure and conductance.

13 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Atomic-level characterization of the structural dynamics of proteins

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

The origin of nonmonotonic complex behavior and the effects of nonnative interactions on the diffusive properties of protein folding

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Protein folded states are kinetic hubs

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Coordinate and time-dependent diffusion dynamics in protein folding.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Coordinate-dependent diffusion in protein folding

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Common structural transitions in explicit-solvent simulations of villin headpiece folding

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Decoding the pattern of photon colors in single-molecule FRET.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Diffusive reaction dynamics on invariant free energy profiles

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Protein folding studied by single-molecule FRET.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Coarse-grained models for simulations of multiprotein complexes: application to ubiquitin binding

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Configuration-dependent diffusion can shift the kinetic transition state and barrier height of protein folding

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

High-resolution, single-molecule measurements of biomolecular motion

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Ultrafast dynamics of protein collapse from single-molecule photon statistics.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Direct measurement of the full, sequence-dependent folding landscape of a nucleic acid

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Effects of denaturants on the dynamics of loop formation in polypeptides

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Free energy surfaces from single-molecule force spectroscopy

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Reaction coordinates and rates from transition paths

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

The effects of nonnative interactions on protein folding rates: theory and simulation

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Absolute comparison of simulated and experimental protein-folding dynamics

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Probing the free-energy surface for protein folding with single-molecule fluorescence spectroscopy

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Computer-based redesign of a protein folding pathway

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Measuring the rate of intramolecular contact formation in polypeptides

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

The speed limit for protein folding measured by triplet-triplet energy transfer.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

An early intermediate in the folding reaction of the B1 domain of protein G contains a native-like core

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Folding dynamics and mechanism of beta-hairpin formation

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

From Levinthal to pathways to funnels

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Kinetics and thermodynamics of folding in model proteins

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

A novel, highly stable fold of the immunoglobulin binding domain of streptococcal protein G

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Proteins fold by subdiffusion of the order parameter.

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Peptide folding kinetics from replica exchange molecular dynamics.

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Polyprotein of GB1 is an ideal artificial elastomeric protein.

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Effective stochastic dynamics on a protein folding energy landscape

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

One-dimensional reaction coordinate and the corresponding potential of mean force from commitment probability distribution

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

One-dimensional reaction coordinates for diffusive activated rate processes in many dimensions

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

From transition paths to transition states and rate coefficients.

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Peptide loop-closure kinetics from microsecond molecular dynamics simulations in explicit solvent

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Speeding protein folding beyond the G(o) model: how a little frustration sometimes helps

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

Critical role of beta-hairpin formation in protein G folding.

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3457642

On the transition coordinate for protein folding

22 September 2018

1 reference

https://api.crossref.org/works/10.1039%2FC1CP21541H

Obtaining fully dynamic coarse-grained models from MD.

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC1CP21541H

Coarse master equations for peptide folding dynamics.

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC1CP21541H

Is protein folding sub-diffusive?

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC1CP21541H

Stochastic Problems in Physics and Astronomy

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC1CP21541H

Conformational Diffusion and Helix Formation Kinetics

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC1CP21541H

Diffusive Model of Protein Folding Dynamics with Kramers Turnover in Rate

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC1CP21541H

Position-dependent diffusion coefficients and free energies from Bayesian analysis of equilibrium and replica molecular dynamics simulations

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC1CP21541H

Folding at the speed limit

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC1CP21541H

First-principles calculation of the folding free energy of a three-helix bundle protein

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21842082

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Folding time predictions from all-atom replica exchange simulations

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21842082

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1039/C1CP21541H

1 reference

13 August 2017

1 reference

PMC publication ID

3457642

13 August 2017

PubMed publication ID

21842082

1 reference

PMC publication ID

3457642