Evidence map›Paper›PMID 25215768›Full record

ArticlePhysical review. E, Statistical, nonlinear, and soft matter physics2014

Defining the free-energy landscape of curvature-inducing proteins on membrane bilayers.

Richard W Tourdot, N Ramakrishnan, Ravi Radhakrishnan

Erratum issuedOpen access · greenAbstract readValidation Study
In one paragraph

Article in Physical review. E, Statistical, nonlinear, and soft matter physics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 15 papers.

0numbers the graph read from it
0cells of the map it votes in
15citing papers in PubMed
1.1field-weighted citation impact, top 22% of its field
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

15 citing papers in PubMed, 28 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Review
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  7. Review
  8. Biophysics of membrane curvature remodeling at molecular and mesoscopic lengthscales.Journal of physics. Condensed matter : an Institute of Physics journal · 2018
    Article
  9. Article
  10. Curvature-undulation coupling as a basis for curvature sensing and generation in bilayer membranes.Proceedings of the National Academy of Sciences of the United States of America · 2016
    Article
  11. Thermodynamic free energy methods to investigate shape transitions in bilayer membranes.International journal of advances in engineering sciences and applied mathematics · 2016
    Article
  12. Article
  13. Article
  14. Article
  15. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

3 authors at 1 institution in 1 country.

Richard W TourdotDepartment of Chemical and Biomolecular Engineering, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA.
N RamakrishnanDepartment of Bioengineering, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA.
Ravi RadhakrishnanDepartment of Chemical and Biomolecular Engineering, Department of Bioengineering, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA.
University of Pennsylvania · US

Funding

YEAST ER MOLECULAR CHAPERONE TRANSLOCATION: GENOME DATABANK HOMOLOGSP41RR006009 · NCRR · MELLON PITTS CORPORATION (MPC CORP) · PI KNOLL, ERIC · 1990 to 2011
$22.0M
Bridging multiple scales in modeling targeted drug nanocarrier deliveryU01EB016027 · NIBIB · UNIVERSITY OF PENNSYLVANIA · PI ECKMANN, DAVID M, RADHAKRISHNAN, RAVI · 2013 to 2017
$2.7M
NCRR NIH HHS P41 RR006009NIBIB NIH HHS U01 EB016027NIBIB NIH HHS U01-EB016027
6 · The paper itself

Abstract

Curvature-sensing and curvature-remodeling proteins, such as Amphiphysin, Epsin, and Exo70, are known to reshape cell membranes, and this remodeling event is essential for key biophysical processes such as tubulation, exocytosis, and endocytosis. Curvature-inducing proteins can act as curvature sensors; they aggregate to membrane regions matching their intrinsic curvature; as well as induce curvature in cell membranes to stabilize emergent high curvature, nonspherical, structures such as tubules, discs, and caveolae. A definitive understanding of the interplay between protein recruitment and migration, the evolution of membrane curvature, and membrane morphological transitions is emerging but remains incomplete. Here, within a continuum framework and using the machinery of Monte Carlo simulations, we introduce and compare three free-energy methods to delineate the free-energy landscape of curvature-inducing proteins on bilayer membranes. We demonstrate the utility of the Widom test particle (or field) insertion methodology in computing the excess chemical potentials associated with curvature-inducing proteins on the membrane-in particular, we use this method to track the onset of morphological transitions in the membrane at elevated protein densities. We validate this approach by comparing the results from the Widom method with those of thermodynamic integration and Bennett acceptance ratio methods. Furthermore, the predictions from the Widom method have been tested against analytical calculations of the excess chemical potential at infinite dilution. Our results are useful in precisely quantifying the free-energy landscape, and also in determining the phase boundaries associated with curvature-induction, curvature-sensing, and morphological transitions. This approach can be extended to studies exploring the role of thermal fluctuations and other external (control) variables, such as membrane excess area, in shaping curvature-mediated interactions on bilayer membranes.

Indexed as

Models, BiologicalCell MembraneComputer SimulationLipid BilayersMonte Carlo MethodProteinsThermodynamicsLipid BilayersProteins

Identifiers

PMID25215768
PMCPMC4336182
OpenAlexW2115284565

What OpenQuestion holds

Textmetadata
LicenceTDM
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.