Unfolded-state dynamics and structure of protein L characterized by simulation and experiment (Q24596398)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20218718%20AND%20SRC:MED&resulttype=core&format=json

19 January 2020

title

Unfolded-state dynamics and structure of protein L characterized by simulation and experiment (English)

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19 January 2020

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0 references

1

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19 January 2020

Lisa J Lapidus

series ordinal

4

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19 January 2020

5

Vijay S Pande

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19 January 2020

author name string

Vijay R Singh

series ordinal

2

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19 January 2020

William J Wedemeyer

series ordinal

3

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19 January 2020

language of work or name

English

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publication date

1 April 2010

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19 January 2020

number of pages

8

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Journal of the American Chemical Society

inferred from page(s)

published in

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19 January 2020

volume

132

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19 January 2020

issue

13

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19 January 2020

page(s)

4702-4709

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Accelerating molecular dynamic simulation on graphics processing units

19 January 2020

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Intrinsically unstructured proteins and their functions

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Intrinsically disordered -subunit of cGMP phosphodiesterase encodes functionally relevant transient secondary and tertiary structure

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

GROMACS: fast, flexible, and free

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

The 13C chemical-shift index: a simple method for the identification of protein secondary structure using 13C chemical-shift data

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Theory for the folding and stability of globular proteins

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

A point-charge force field for molecular mechanics simulations of proteins based on condensed-phase quantum mechanical calculations

24 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Exploring protein native states and large-scale conformational changes with a modified generalized born model

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Ruggedness in the folding landscape of protein L.

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Linking folding and binding

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Collapse transition in proteins

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Denaturant-induced expansion and compaction of a multi-domain protein: IgG.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Effects of denaturants and osmolytes on proteins are accurately predicted by the molecular transfer model

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Early events in protein folding: Is there something more than hydrophobic burst?

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

A test on peptide stability of AMBER force fields with implicit solvation

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Modeling transient collapsed states of an unfolded protein to provide insights into early folding events

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Using fluorescence correlation spectroscopy to study conformational changes in denatured proteins

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Implicit modeling of nonpolar solvation for simulating protein folding and conformational transitions.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Improved structural characterizations of the drkN SH3 domain unfolded state suggest a compact ensemble with native-like and non-native structure

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Ultrafast dynamics of protein collapse from single-molecule photon statistics.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Alpha-synuclein tertiary contact dynamics

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Characterizing the unfolded states of proteins using single-molecule FRET spectroscopy and molecular simulations

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Atomic-level characterization of disordered protein ensembles

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

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

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Effects of denaturants on the dynamics of loop formation in polypeptides

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Effect of modulating unfolded state structure on the folding kinetics of the villin headpiece subdomain

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Statistical coil model of the unfolded state: resolving the reconciliation problem

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Is there or isn't there? The case for (and against) residual structure in chemically denatured proteins

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Balancing energy and entropy: a minimalist model for the characterization of protein folding landscapes

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Alpha-synuclein structures from fluorescence energy-transfer kinetics: implications for the role of the protein in Parkinson's disease

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Reassessing random-coil statistics in unfolded proteins

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Random-coil behavior and the dimensions of chemically unfolded proteins

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

How fast is protein hydrophobic collapse?

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Coarse-grained sequences for protein folding and design

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

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

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Probing the free-energy surface for protein folding with single-molecule fluorescence spectroscopy

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Native-like mean structure in the unfolded ensemble of small proteins

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Measuring the rate of intramolecular contact formation in polypeptides

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

The speed limit for protein folding measured by triplet-triplet energy transfer.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Toward an accurate determination of free energy landscapes in solution states of proteins.

27 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

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

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Conformational distributions of unfolded polypeptides from novel NMR techniques

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

28 November 2018

1 reference

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Mapping Long-Range Interactions in α-Synuclein using Spin-Label NMR and Ensemble Molecular Dynamics Simulations

28 November 2018

1 reference

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Structural characterization of unfolded states of apomyoglobin using residual dipolar couplings

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Direct demonstration of structural similarity between native and denatured eglin C.

28 November 2018

1 reference

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Determination of an ensemble of structures representing the denatured state of the bovine acyl-coenzyme a binding protein

28 November 2018

1 reference

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Kinetics of intramolecular contact formation in a denatured protein

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

Measurement of submicrosecond intramolecular contact formation in peptides at the single-molecule level

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2853762

A fluorescence-based method for direct measurement of submicrosecond intramolecular contact formation in biopolymers: an exploratory study with polypeptides

28 November 2018

1 reference

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Dynamics of intramolecular contact formation in polypeptides: distance dependence of quenching rates in a room-temperature glass.

28 November 2018

1 reference

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Persistence of native-like topology in a denatured protein in 8 M urea

28 November 2018

1 reference

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NMR characterization of residual structure in the denatured state of protein L

28 November 2018

1 reference

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Kinetics of Folding of the IgG Binding Domain of Peptostreptoccocal Protein L

28 November 2018

1 reference

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Chain collapse can occur concomitantly with the rate-limiting step in protein folding

28 November 2018

1 reference

12 December 2020

Striking Effects of Hydrodynamic Interactions on the Simulated Diffusion and Folding of Proteins

1 reference

12 December 2020

Influence of local and residual structures on the scaling behavior and dimensions of unfolded proteins

1 reference

12 December 2020

Electrostatic Interactions in the Denatured State and in the Transition State for Protein Folding: Effects of Denatured State Interactions on the Analysis of Transition State Structure

1 reference

12 December 2020

Identifiers

DOI

10.1021/JA908369H

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20218718%20AND%20SRC:MED&resulttype=core&format=json

19 January 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:20218718%20AND%20SRC:MED&resulttype=core&format=json

19 January 2020

PubMed publication ID

20218718

1 reference