Crowding effects on the mechanical stability and unfolding pathways of ubiquitin (Q37239679)

19 August 2017

Crowding effects on the mechanical stability and unfolding pathways of ubiquitin (English)

1 reference

19 August 2017

D Thirumalai

1 reference

19 August 2017

David L Pincus

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PMC publication ID

2701264

19 August 2017

language of work or name

English

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publication date

1 January 2009

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Journal of Physical Chemistry B

19 August 2017

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19 August 2017

113

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19 August 2017

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19 August 2017

359-368

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Minimal models for proteins and RNA from folding to function

19 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Crowded, cell-like environment induces shape changes in aspherical protein

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Macromolecular crowding and confinement: biochemical, biophysical, and potential physiological consequences

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Atomic force microscopy reveals parallel mechanical unfolding pathways of T4 lysozyme: evidence for a kinetic partitioning mechanism.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Revealing the bifurcation in the unfolding pathways of GFP by using single-molecule experiments and simulations

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Molecular crowding enhances native structure and stability of alpha/beta protein flavodoxin

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Mechanical control of the directional stepping dynamics of the kinesin motor

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Dynamics of allosteric transitions in GroEL.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Refolding upon force quench and pathways of mechanical and thermal unfolding of ubiquitin

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Forced-unfolding and force-quench refolding of RNA hairpins

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Molecular crowding enhances native state stability and refolding rates of globular proteins

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Models for excluded volume interaction between an unfolded protein and rigid macromolecular cosolutes: macromolecular crowding and protein stability revisited.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Anomalous subdiffusion is a measure for cytoplasmic crowding in living cells

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Loops, linkages, rings, catenanes, cages, and crowders: entropy-based strategies for stabilizing proteins.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

The origins of asymmetry in the folding transition states of protein L and protein G.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Stretching single molecules into novel conformations using the atomic force microscope.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Mechanical and chemical unfolding of a single protein: a comparison

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Dynamic strength of molecular adhesion bonds

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

VMD: visual molecular dynamics

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Structure of ubiquitin refined at 1.8 A resolution

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Pulling direction as a reaction coordinate for the mechanical unfolding of single molecules

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Allosteric communication in dihydrofolate reductase: signaling network and pathways for closed to occluded transition and back

3 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Effects of crowding and confinement on the structures of the transition state ensemble in proteins

3 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Pathways and kinetic barriers in mechanical unfolding and refolding of RNA and proteins

3 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

The mechanical stability of ubiquitin is linkage dependent

3 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2701264

Effect of dextran on protein stability and conformation attributed to macromolecular crowding

3 September 2018

1 reference

12 December 2020

Protein folding kinetics: timescales, pathways and energy landscapes in terms of sequence-dependent properties

1 reference

12 December 2020

Free polymer in a colloidal solution

1 reference

12 December 2020

Isolated polymer molecule in a random environment

1 reference

12 December 2020

Depletion effects and loop formation in self-avoiding polymers

1 reference

12 December 2020

Identifiers

DOI

10.1021/JP807755B

1 reference

19 August 2017

1 reference

1 reference

PMC publication ID

2701264

19 August 2017

PubMed publication ID

19072020

1 reference

PMC publication ID

2701264