(Q36446342)

14 August 2017

Folding domain B of protein A on a dynamically partitioned free energy landscape (English)

1 reference

14 August 2017

0 references

1 reference

2

Nick V Grishin

1 reference

14 August 2017

Erik D Nelson

1

1 reference

14 August 2017

language of work or name

English

0 references

publication date

29 January 2008

1 reference

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

14 August 2017

1 reference

14 August 2017

105

1 reference

14 August 2017

5

1 reference

14 August 2017

1489-1493

1 reference

An extended dynamical hydration shell around proteins

14 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Water pulls the strings in hydrophobic polymer collapse

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Solvent coarse-graining and the string method applied to the hydrophobic collapse of a hydrated chain

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Excluded volume, local structural cooperativity, and the polymer physics of protein folding rates

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Folding free-energy landscape of villin headpiece subdomain from molecular dynamics 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=2234171

Distinguishing between cooperative and unimodal downhill 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=2234171

Local structure formation in simulations of two small 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=2234171

Protein folding is slaved to solvent motions

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Multiple routes lead to the native state in the energy landscape of the beta-trefoil family

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

The experimental survey of protein-folding energy landscapes

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Flexibly varying folding mechanism of a nearly symmetrical protein: B domain of protein A.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Characterization of the folding landscape of monomeric lactose repressor: quantitative comparison of theory and experiment

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Three-body interactions improve the prediction of rate and mechanism in protein folding models

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Latest folding game results: protein A barely frustrates computationalists

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Testing protein-folding simulations by experiment: B domain of protein A.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Folding a protein in a computer: An atomic description of the folding/unfolding of protein A

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Experimental identification of downhill 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=2234171

The ensemble folding kinetics of protein G from an all-atom Monte Carlo 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=2234171

Drying-induced hydrophobic polymer collapse

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Protein folding mediated by solvation: water expulsion and formation of the hydrophobic core occur after the structural collapse

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

What can we learn about protein folding from Ising-like models?

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Exploring the origins of topological frustration: design of a minimally frustrated model of fragment B of protein A.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Mechanical and chemical unfolding of a single protein: a comparison

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Asparagine and glutamine: using hydrogen atom contacts in the choice of side-chain amide orientation

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

A statistical mechanical model for beta-hairpin kinetics.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

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=2234171

Exploring the folding free energy surface of a three-helix bundle 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=2234171

Application of physical organic chemistry to engineered mutants of proteins: Hammond postulate behavior in the transition state 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=2234171

Crystallographic refinement and atomic models of a human Fc fragment and its complex with fragment B of protein A from Staphylococcus aureus at 2.9- and 2.8-A resolution

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Energetic and structural consequences of desolvation/solvation barriers to protein folding/unfolding assessed from experimental unfolding rates

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Searching for multiple folding pathways of a nearly symmetrical protein: temperature dependent phi-value analysis of the B domain of protein A.

28 June 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0705707105

Alternate pathways for folding in the flavodoxin fold family revealed by a nucleation-growth model.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0705707105

Downhill versus two-state protein folding in a statistical mechanical model

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0705707105

Contact order dependent protein folding rates: kinetic consequences of a cooperative interplay between favorable nonlocal interactions and local conformational preferences.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0705707105

Volume changes on protein folding.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0705707105

Simulation studies of the fidelity of biomolecular structure ensemble recreation

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0705707105

Tuning lambda6-85 towards downhill folding at its melting temperature

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0705707105

Protein engineering study of protein L by simulation

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0705707105

Im7 folding mechanism: misfolding on a path to the native state

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2234171

Outlining Folding Nuclei in Globular Proteins

21 September 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0705707105

Folding time predictions from all-atom replica exchange simulations

21 January 2018

1 reference

12 December 2020

Structural correspondence between the alpha-helix and the random-flight chain resolves how unfolded proteins can have native-like properties

1 reference

12 December 2020

The magnitude of the backbone conformational entropy change in protein folding

1 reference

12 December 2020

An intermediate seeks instant gratification

1 reference

12 December 2020

Exact solution of the Muñoz-Eaton model for protein folding

1 reference

12 December 2020

Do proteins with similar folds have similar transition state structures? A diffuse transition state of the 169 residue apoflavodoxin

1 reference

12 December 2020

Theoretical analysis on changes in thermodynamic quantities upon protein folding: essential role of hydration

1 reference

12 December 2020

Exploring structures in protein folding funnels with free energy functionals: the transition state ensemble

1 reference

12 December 2020

Efficient expansion, folding, and unfolding of proteins

1 reference

12 December 2020

Loop entropy and cytochrome c stability

1 reference

12 December 2020

Identifiers

DOI

10.1073/PNAS.0705707105

1 reference

release_ovyuytkdqbafdn4txihyg73voe

14 August 2017

0 references

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/ovyuytkdqbafdn4txihyg73voe

24 November 2022

mapped directly with Wikidata item

1 reference

14 August 2017

PubMed publication ID

18230738

1 reference