Slow unfolded-state structuring in Acyl-CoA binding protein folding revealed by simulation and experiment (Q28727357)

3

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Shimon Weiss

object named as

Shimon Weiss

11

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Vijay Pande

12

object named as

Vijay S Pande

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author name string

Marcus Jäger

2

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Yujie Chen

4

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Li Zhu

5

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Steven A Waldauer

6

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Gregory R Bowman

7

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Mark Friedrichs

8

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Olgica Bakajin

9

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Lisa J Lapidus

Journal of the American Chemical Society

10

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language of work or name

English

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publication date

1 August 2012

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published in

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volume

134

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issue

30

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page(s)

12565-77

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cites work

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Single-molecule fluorescence spectroscopy maps the folding landscape of a large protein

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Evidence for Initial Non-specific Polypeptide Chain Collapse During the Refolding of the SH3 Domain of PI3 Kinase

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Cooperative formation of native-like tertiary contacts in the ensemble of unfolded states of a four-helix protein

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Protein folded states are kinetic hubs

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Multiple conformations of full-length p53 detected with single-molecule fluorescence resonance energy transfer

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Constructing the equilibrium ensemble of folding pathways from short off-equilibrium simulations.

20 June 2018

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Progress and challenges in the automated construction of Markov state models for full protein systems

20 June 2018

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Reactive flux and folding pathways in network models of coarse-grained protein dynamics

20 June 2018

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Using generalized ensemble simulations and Markov state models to identify conformational states

20 June 2018

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Collapse transition in proteins

20 June 2018

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Statistically optimal analysis of samples from multiple equilibrium states

20 June 2018

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20 June 2018

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COMPUTING: Screen Savers of the World Unite!

20 June 2018

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Mapping protein collapse with single-molecule fluorescence and kinetic synchrotron radiation circular dichroism spectroscopy

20 June 2018

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Coil-globule transition in the denatured state of a small protein

20 June 2018

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The inverted chevron plot measured by NMR relaxation reveals a native-like unfolding intermediate in acyl-CoA binding protein

20 June 2018

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Probing structural heterogeneities and fluctuations of nucleic acids and denatured proteins

20 June 2018

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Helix, sheet, and polyproline II frequencies and strong nearest neighbor effects in a restricted coil library

20 June 2018

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Femtomole mixer for microsecond kinetic studies of protein folding

20 June 2018

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Reassessing random-coil statistics in unfolded proteins

20 June 2018

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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

20 June 2018

1 reference

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Fluorescence-aided molecule sorting: analysis of structure and interactions by alternating-laser excitation of single molecules

20 June 2018

1 reference

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How fast is protein hydrophobic collapse?

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3462454

Transient structure formation in unfolded acyl-coenzyme A-binding protein observed by site-directed spin labelling

20 June 2018

1 reference

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Early kinetic intermediate in the folding of acyl-CoA binding protein detected by fluorescence labeling and ultrarapid mixing

20 June 2018

1 reference

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Determination of Secondary Structure Populations in Disordered States of Proteins Using Nuclear Magnetic Resonance Chemical Shifts

20 June 2018

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Structure and dynamics of an unfolded protein examined by molecular dynamics simulation

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3462454

Analyzing complicated protein folding kinetics rapidly by analytical Laplace inversion using a Tikhonov regularization variant.

27 November 2018

1 reference

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Hierarchy of folding and unfolding events of protein G, CI2, and ACBP from explicit-solvent simulations.

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3462454

Bayesian comparison of Markov models of molecular dynamics with detailed balance constraint

27 November 2018

1 reference

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Protein folding, protein collapse, and tanford's transfer model: lessons from single-molecule FRET.

27 November 2018

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Coarse master equations for peptide folding dynamics.

27 November 2018

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Coulomb forces control the density of the collapsed unfolded state of barstar

27 November 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3462454

Detection of initiation sites in protein folding of the four helix bundle ACBP by chemical shift analysis

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3462454

Automatic discovery of metastable states for the construction of Markov models of macromolecular conformational dynamics

27 November 2018

1 reference

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Site-specific dimensions across a highly denatured protein; a single molecule study

27 November 2018

1 reference

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Protein-protein interactions as a tool for site-specific labeling of proteins

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3462454

Formation of native and non-native interactions in ensembles of denatured ACBP molecules from paramagnetic relaxation enhancement studies

27 November 2018

1 reference

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Kinetics of intramolecular contact formation in a denatured protein

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3462454

The formation of a native-like structure containing eight conserved hydrophobic residues is rate limiting in two-state protein folding of ACBP

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3462454

Simple theory of protein folding kinetics

27 November 2018

1 reference

12 December 2020

The protein folding network

1 reference

12 December 2020

Two-state expansion and collapse of a polypeptide

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12 December 2020

A new substitution matrix for protein sequence searches based on contact frequencies in protein structures

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12 December 2020

Identifiers

DOI

10.1021/JA302528Z

1 reference

release_p753kwbe3jbw5bcs5juqfkxn7a

Fatcat ID

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/p753kwbe3jbw5bcs5juqfkxn7a

24 November 2022

mapped directly with Wikidata item

1 reference

1 reference

PubMed publication ID

22747188

1 reference