(Q36893547)

16 August 2017

Diffusive reaction dynamics on invariant free energy profiles (English)

1 reference

16 August 2017

2

Martin Karplus

1 reference

16 August 2017

Sergei V Krivov

1

1 reference

PMCID

2544541

16 August 2017

language of work or name

English

0 references

publication date

4 September 2008

1 reference

Proceedings of the National Academy of Sciences of the United States of America

16 August 2017

1 reference

16 August 2017

105

1 reference

16 August 2017

37

1 reference

16 August 2017

13841-13846

1 reference

Free-energy landscape of enzyme catalysis

16 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2544541

Low-dimensional, free-energy landscapes of protein-folding reactions by nonlinear dimensionality reduction

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2544541

Reaction coordinates and rates from transition paths

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2544541

Hidden complexity of free energy surfaces for peptide (protein) folding

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2544541

The protein folding 'speed limit'.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2544541

Evaluation of a fast implicit solvent model for molecular dynamics simulations

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2544541

From folding theories to folding proteins: a review and assessment of simulation studies of protein folding and unfolding

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2544541

Folding simulations of a three-stranded antiparallel beta -sheet peptide

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2544541

Observation of strange kinetics in protein folding

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2544541

Solution conformations and thermodynamics of structured peptides: molecular dynamics simulation with an implicit solvation model.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2544541

Diffusion-limited contact formation in unfolded cytochrome c: estimating the maximum rate of protein folding

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2544541

Protein folding in the landscape perspective: chevron plots and non-Arrhenius kinetics

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2544541

Two-dimensional reaction free energy surfaces of catalytic reaction: effects of protein conformational dynamics on enzyme catalysis.

27 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2544541

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

4 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2544541

Automatic method for identifying reaction coordinates in complex systems.

4 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2544541

One-dimensional free-energy profiles of complex systems: progress variables that preserve the barriers.

4 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2544541

Protein folding funnels: the nature of the transition state ensemble

4 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2544541

Protein Folding: A Perspective from Theory and Experiment.

4 September 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0800228105

CHARMM: A program for macromolecular energy, minimization, and dynamics calculations

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0800228105

On the transition coordinate for protein folding

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0800228105

Current Status of Transition-State Theory

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0800228105

Folding at the speed limit

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0800228105

The protein folding network

21 January 2018

1 reference

12 December 2020

Energy landscape of a small peptide revealed by dihedral angle principal component analysis

1 reference

12 December 2020

Simulation of conformational transitions by the restricted perturbation-targeted molecular dynamics method

1 reference

12 December 2020

A lattice protein with an amyloidogenic latent state: stability and folding kinetics

1 reference

12 December 2020

Simulation of activation free energies in molecular systems

1 reference

11 October 2022

https://opencitations.net/index/coci/api/v1/references/10.1073/PNAS.0800228105

Statistical mechanics of isomerization dynamics in liquids and the transition state approximation

1 reference

11 October 2022

https://opencitations.net/index/coci/api/v1/references/10.1073/PNAS.0800228105

Identifiers

DOI

10.1073/PNAS.0800228105

1 reference

16 August 2017

0 references

1 reference

16 August 2017

1 reference

PMCID

2544541