(Q33784400)

29 July 2017

title

Protein folding pathways from replica exchange simulations and a kinetic network model (English)

1 reference

29 July 2017

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Michael Andrec

1

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29 July 2017

Anthony K Felts

series ordinal

2

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29 July 2017

Emilio Gallicchio

series ordinal

3

1 reference

29 July 2017

Ronald M Levy

series ordinal

4

1 reference

29 July 2017

language of work or name

English

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publication date

30 March 2005

1 reference

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

29 July 2017

published in

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29 July 2017

volume

102

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29 July 2017

issue

19

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29 July 2017

page(s)

6801-6806

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Using path sampling to build better Markovian state models: predicting the folding rate and mechanism of a tryptophan zipper beta hairpin

29 July 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Transition-path sampling of β-hairpin folding

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

On the nonpolar hydration free energy of proteins: surface area and continuum solvent models for the solute-solvent interaction energy.

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Atomistic protein folding simulations on the submillisecond time scale using worldwide distributed computing

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

On the simulation of protein folding by short time scale molecular dynamics and distributed computing

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Fast-folding protein kinetics, hidden intermediates, and the sequential stabilization model

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Protein and peptide folding explored with molecular simulations

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Transition path sampling: throwing ropes over rough mountain passes, in the dark.

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Protein folding and unfolding at atomic resolution

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

The free energy landscape for beta hairpin folding in explicit water

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Fast kinetics and mechanisms in protein folding

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Understanding protein folding via free-energy surfaces from theory and experiment

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Mechanisms and kinetics of beta-hairpin formation

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Identifying the protein folding nucleus using molecular dynamics.

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Dynamics and thermodynamics of beta-hairpin assembly: insights from various simulation techniques

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Understanding beta-hairpin formation

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Molecular dynamics simulations of unfolding and refolding of a beta-hairpin fragment of protein G

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Polymer principles and protein folding

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Folding dynamics and mechanism of beta-hairpin formation

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Theory of protein folding: the energy landscape perspective

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Knowledge-based protein secondary structure assignment

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Cooperativity in protein-folding kinetics

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

A short linear peptide that folds into a native stable beta-hairpin in aqueous solution

4 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1100763

Computing the transition state populations in simple protein models

4 July 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408970102

Molecular dynamics simulations of a beta-hairpin fragment of protein G: balance between side-chain and backbone forces

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408970102

Free energy surfaces of beta-hairpin and alpha-helical peptides generated by replica exchange molecular dynamics with the AGBNP implicit solvent model

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408970102

Replica-exchange molecular dynamics method for protein folding

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408970102

Complex folding pathways in a simple beta-hairpin

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408970102

Folding of the GB1 hairpin peptide from discrete path sampling.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408970102

AGBNP: an analytic implicit solvent model suitable for molecular dynamics simulations and high-resolution modeling.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408970102

The non-polar solvent potential of mean force for the dimerization of alanine dipeptide: the role of solute-solvent van der Waals interactions

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408970102

PROTEIN FORCE-FIELD PARAMETERS OPTIMIZED WITH THE PROTEIN DATA BANK II: COMPARISONS OF FORCE FIELDS BY FOLDING SIMULATIONS OF SHORT PEPTIDES

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0408970102

Thermodynamics of a beta-hairpin structure: evidence for cooperative formation of folding nucleus

21 January 2018

1 reference

12 December 2020

Exploring the energy landscape of a beta hairpin in explicit solvent

1 reference

12 December 2020

Structural and kinetic characterization of early folding events in beta-lactoglobulin

1 reference

12 December 2020

The protein folding network

1 reference

12 December 2020

Kinetic refolding of beta-lactoglobulin. Studies by synchrotron X-ray scattering, and circular dichroism, absorption and fluorescence spectroscopy

1 reference

12 December 2020

Beta-hairpin folding simulations in atomistic detail using an implicit solvent model

1 reference

12 December 2020

Role of side-chains in the cooperative beta-hairpin folding of the short C-terminal fragment derived from streptococcal protein G

1 reference

12 December 2020

Evidence of turn and salt bridge contributions to beta-hairpin stability: MD simulations of C-terminal fragment from the B1 domain of protein G

1 reference

12 December 2020

Identifiers

DOI

10.1073/PNAS.0408970102

1 reference

29 July 2017

0 references

1 reference

29 July 2017

1 reference