Evidence map›Paper›PMID 23789729›Full record

ArticleThe journal of physical chemistry. B2013

Force-induced unzipping transitions in an athermal crowded environment.

David L Pincus, D Thirumalai

Abstract read
In one paragraph

Article in The journal of physical chemistry. B, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

1 citing paper in PubMed.

  1. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

2 authors.

David L PincusInstitute for Physical Science and Technology, University of Maryland , College Park, Maryland 20742, United States.
D Thirumalai

Funding

Computational Approaches to Single Molecule Force SpectroscopyR01GM089685 · NIGMS · UNIV OF MARYLAND, COLLEGE PARK · PI THIRUMALAI, DEVARAJAN · 2010 to 2020
$2.9M
NIGMS NIH HHS GM089685NIGMS NIH HHS R01 GM089685
6 · The paper itself

Abstract

Using theoretical arguments and extensive Monte Carlo (MC) simulations of a coarse-grained three-dimensional off-lattice model of a β-hairpin, we demonstrate that the equilibrium critical force, Fc, needed to unfold the biopolymer increases nonlinearly with increasing volume fraction occupied by the spherical macromolecular crowding agent. Both scaling arguments and MC simulations show that the critical force increases as Fc ≈ φc(α). The exponent α is linked to the Flory exponent relating the size of the unfolded state of the biopolymer and the number of amino acids. The predicted power law dependence is confirmed in simulations of the dependence of the isothermal extensibility and the fraction of native contacts on φc. We also show using MC simulations that Fc is linearly dependent on the average osmotic pressure (P) exerted by the crowding agents on the β-hairpin. The highly significant linear correlation coefficient of 0.99657 between Fc and P makes it straightforward to predict the dependence of the critical force on the density of crowders. Our predictions are amenable to experimental verification using laser optical tweezers.

Indexed as

Bacterial ProteinsMolecular Dynamics SimulationMonte Carlo MethodOsmotic PressureProtein FoldingProteinsProtein Structure, SecondaryThermodynamicsBacterial ProteinsIgG Fc-binding protein, StreptococcusProteins

Identifiers

PMID23789729
PMCPMC3808530

What OpenQuestion holds

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Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.