Folding funnels and frustration in off-lattice minimalist protein landscapes (Q30176183)

13 August 2017

Folding funnels and frustration in off-lattice minimalist protein landscapes (English)

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13 August 2017

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H Nymeyer

1

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13 August 2017

A E García

series ordinal

2

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13 August 2017

J N Onuchic

series ordinal

3

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13 August 2017

language of work or name

English

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publication date

1 May 1998

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13 August 2017

8

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

inferred from page(s)

published in

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13 August 2017

95

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13 August 2017

11

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13 August 2017

5921-5928

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Thermodynamics of protein folding: a statistical mechanical study of a small all-beta protein

13 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Statistics of kinetic pathways on biased rough energy landscapes with applications to 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=34496

Folding Dynamics of the src SH3 Domain

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Protein folding kinetics exhibit an Arrhenius temperature dependence when corrected for the temperature dependence of protein stability

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Theory of protein folding: the energy landscape perspective

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Functional rapidly folding proteins from simplified amino acid sequences.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

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

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Linking topography of its potential surface with the dynamics of folding of a protein 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=34496

Molecular collapse: the rate-limiting step in two-state cytochrome c 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=34496

Adding backbone to protein folding: why proteins are polypeptides

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

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=34496

From Levinthal to pathways to funnels

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Time-resolved biophysical methods in the study 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=34496

Building self-avoiding lattice models of proteins using a self-consistent field optimization.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Fast-folding experiments and the topography of protein folding energy landscapes

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Sequence space, folding and protein design

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Why are some proteins structures so common?

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Fast events in protein folding: helix melting and formation in a small peptide.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Pathways 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=34496

Navigating the folding routes

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Nonrandomness in protein sequences: evidence for a physically driven stage of evolution?

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Computational approaches to study protein unfolding: hen egg white lysozyme as a case study

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Funnels, pathways, and the energy landscape of protein folding: a synthesis

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Toward an outline of the topography of a realistic protein-folding funnel

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Protein Unfolding Pathways Explored Through 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=34496

Conformation, energy, and folding ability of selected amino acid sequences

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Ultrafast thermally induced unfolding of RNase 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=34496

Principles of protein folding--a perspective from simple exact 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=34496

Simple model of 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=34496

Lattice model for rapidly folding protein-like heteropolymers

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Spin glasses and the statistical mechanics 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=34496

Conformational substates in 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=34496

Intermediates in the folding reactions of 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=34496

Generalized protein tertiary structure recognition using associative memory Hamiltonians.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

The nature of folded states of 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=34496

Protein folding funnels: a kinetic approach to the sequence-structure relationship

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Protein folding studied using hydrogen-exchange labeling and two-dimensional NMR

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Contribution of physical chemistry to an understanding of protein structure and function

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=34496

Computer simulation 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=34496

Kinetics of protein folding. A lattice model study of the requirements for folding to the native state.

3 June 2018

1 reference

https://api.crossref.org/works/10.1073/PNAS.95.11.5921

Cytochrome c folding triggered by electron transfer

21 January 2018

1 reference

https://api.crossref.org/works/10.1073/PNAS.95.11.5921

Molecular dynamics simulations of isolated helices of myoglobin

21 January 2018

1 reference

https://api.crossref.org/works/10.1073/PNAS.95.11.5921

Conformations of folded proteins in restricted spaces

21 January 2018

1 reference

https://api.crossref.org/works/10.1073/PNAS.95.11.5921

Formation of a molten globule intermediate early in the kinetic folding pathway of apomyoglobin

21 January 2018

1 reference

https://api.crossref.org/works/10.1073/PNAS.95.11.5921

The kinetic folding intermediate of ribonuclease H resembles the acid molten globule and partially unfolded molecules detected under native conditions.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073/PNAS.95.11.5921

Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes

21 January 2018

1 reference

https://api.crossref.org/works/10.1073/PNAS.95.11.5921

Molecular dynamics with coupling to an external bath

21 January 2018

1 reference

https://api.crossref.org/works/10.1073/PNAS.95.11.5921

The Structure of the Transition State for Folding of Chymotrypsin Inhibitor 2 Analysed by Protein Engineering Methods: Evidence for a Nucleation-condensation Mechanism for Protein Folding

21 January 2018

1 reference

https://api.crossref.org/works/10.1073/PNAS.95.11.5921

Prediction of peptide conformation by multicanonical algorithm: New approach to the multiple-minima problem

21 January 2018

1 reference

https://api.crossref.org/works/10.1073/PNAS.95.11.5921

Multi-basin dynamics of a protein in a crystal environment

21 January 2018

1 reference

https://api.crossref.org/works/10.1073/PNAS.95.11.5921

Submillisecond kinetics of protein folding

21 January 2018

1 reference

12 December 2020

Observation of distinct nanosecond and microsecond protein folding events

1 reference

12 December 2020

Kinetic mechanism of cytochrome c folding: involvement of the heme and its ligands

1 reference

12 December 2020

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

1 reference

12 December 2020

Minimum energy compact structures of random sequences of heteropolymers

1 reference

12 December 2020

The energy landscape of a fast-folding protein mapped by Ala-->Gly substitutions

1 reference

12 December 2020

Structure of the transition state for folding of the 129 aa protein CheY resembles that of a smaller protein, CI-2

1 reference

12 December 2020

Molten globular characteristics of the native state of apomyoglobin

1 reference

12 December 2020

Optimized Monte Carlo data analysis

1 reference

12 December 2020

Kinetics and thermodynamics of folding of a de novo designed four-helix bundle protein

1 reference

12 December 2020

Large-amplitude nonlinear motions in proteins

1 reference

12 December 2020

Universality and diversity of the protein folding scenarios: a comprehensive analysis with the aid of a lattice model

1 reference

12 December 2020

Monte Carlo simulations of protein folding using inexact potentials: how accurate must parameters be in order to preserve the essential features of the energy landscape?

1 reference

12 December 2020

Local conformational signals and the statistical thermodynamics of collapsed helical proteins

1 reference

12 December 2020

Identifiers

DOI

10.1073/PNAS.95.11.5921

1 reference

13 August 2017

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1 reference

13 August 2017

PubMed publication ID

9600893

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