(Q30362818)

11 August 2017

Protein folding by zipping and assembly (English)

1 reference

11 August 2017

0 references

4

Ken A Dill

1 reference

11 August 2017

S Banu Ozkan

1

1 reference

11 August 2017

G Albert Wu

series ordinal

2

1 reference

11 August 2017

John D Chodera

series ordinal

3

1 reference

11 August 2017

language of work or name

English

0 references

publication date

9 July 2007

1 reference

11 August 2017

6

1 reference

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

inferred from page(s)

published in

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11 August 2017

104

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11 August 2017

29

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11 August 2017

11987-11992

1 reference

High-resolution protein folding with a transferable potential

11 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Toward high-resolution de novo structure prediction for small proteins.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Folding cooperativity in a three-stranded beta-sheet model

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Physics-based protein-structure prediction using a hierarchical protocol based on the UNRES force field: assessment in two blind tests.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Protein folding: the stepwise assembly of foldon units

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Ab initio simulations of protein-folding pathways by molecular dynamics with the united-residue model of polypeptide chains

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Computational protein design is a challenge for implicit solvation models

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

The protein folding 'speed limit'.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

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

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

A hierarchical approach to all-atom protein loop prediction

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Atomically detailed folding simulation of the B domain of staphylococcal protein A from random structures

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

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

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Free energy landscape of protein folding in water: Explicit vs. implicit solvent

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Folding kinetics of two-state proteins: effect of circularization, permutation, and crosslinks.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Understanding folding and design: replica-exchange simulations of "Trp-cage" miniproteins

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

The Trp cage: folding kinetics and unfolded state topology via molecular dynamics simulations

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Simulation of folding of a small alpha-helical protein in atomistic detail using worldwide-distributed computing

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Can a continuum solvent model reproduce the free energy landscape of a beta -hairpin folding in water?

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

The free energy landscape for beta hairpin folding in explicit water

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Protein structure prediction and structural genomics

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Anisotropy of fluctuation dynamics of proteins with an elastic network model

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Pathways to a protein folding intermediate observed in a 1-microsecond simulation in aqueous solution

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Blind predictions of local protein structure in CASP2 targets using the I-sites library

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Absence of a stable intermediate on the folding pathway of protein A.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Nucleation mechanisms in protein folding

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Cooperativity in protein-folding kinetics

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Specific intermediates in the folding reactions of small proteins and the mechanism of protein folding

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Hierarchic organization of domains in globular proteins

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1924571

Folding rates and low-entropy-loss routes of two-state proteins.

3 June 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703700104

Simulation and experiment conspire to reveal cryptic intermediates and a slide from the nucleation-condensation to framework mechanism of folding

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703700104

Comparison of a QM/MM force field and molecular mechanics force fields in simulations of alanine and glycine "dipeptides" (Ace-Ala-Nme and Ace-Gly-Nme) in water in relation to the problem of modeling the unfolded peptide backbone in solution

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703700104

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.0703700104

Replica-exchange molecular dynamics method for protein folding

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703700104

Exploring zipping and assembly as a protein folding principle

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703700104

THE weighted histogram analysis method for free-energy calculations on biomolecules. I. The method

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703700104

Use of the Weighted Histogram Analysis Method for the Analysis of Simulated and Parallel Tempering Simulations

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703700104

Transition states and the meaning of Phi-values in protein folding kinetics

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703700104

Convergence of replica exchange molecular dynamics.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703700104

Computational analysis and prediction of the binding motif and protein interacting partners of the Abl SH3 domain

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703700104

Secondary-structure preferences of force fields for proteins evaluated by generalized-ensemble simulations

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703700104

21 January 2018

Protein-folding dynamics

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0703700104

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

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17620603

12 December 2020

inferred from PubMed ID database lookup

Loop-closure events during protein folding: rationalizing the shape of Phi-value distributions

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17620603

12 December 2020

inferred from PubMed ID database lookup

Symmetric connectivity of secondary structure elements enhances the diversity of folding pathways

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17620603

12 December 2020

inferred from PubMed ID database lookup

Identifiers

DOI

10.1073/PNAS.0703700104

1 reference

11 August 2017

0 references

1 reference

11 August 2017

PubMed publication ID

17620603

1 reference