Evidence map›Paper›PMID 25058506›Full record

ArticlePLoS computational biology2014

Membrane interaction of bound ligands contributes to the negative binding cooperativity of the EGF receptor.

Anton Arkhipov, Yibing Shan, Eric T Kim, David E Shaw

Open access · goldAbstract read
In one paragraph

Article in PLoS computational biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.

0numbers the graph read from it
0cells of the map it votes in
20citing papers in PubMed
5.6field-weighted citation impact, top 4% 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

20 citing papers in PubMed, 52 citations in OpenAlex.

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  16. N-Glycosylation as determinant of epidermal growth factor receptor conformation in membranes.Proceedings of the National Academy of Sciences of the United States of America · 2015
    Article
  17. Article
  18. Review
  19. Putting together structures of epidermal growth factor receptors.Current opinion in structural biology · 2014
    Review
  20. Article
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

4 authors at 2 institutions in 1 country.

Anton ArkhipovD. E. Shaw Research, New York, New York, United States of America.
Yibing ShanD. E. Shaw Research, New York, New York, United States of America.
Eric T KimD. E. Shaw Research, New York, New York, United States of America.
David E ShawD. E. Shaw Research, New York, New York, United States of America; Department of Biochemistry and Molecular Biophysics, Columbia University, New York, New York, United States of America.
D. E. Shaw Research · USColumbia University · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The epidermal growth factor receptor (EGFR) plays a key role in regulating cell proliferation, migration, and differentiation, and aberrant EGFR signaling is implicated in a variety of cancers. EGFR signaling is triggered by extracellular ligand binding, which promotes EGFR dimerization and activation. Ligand-binding measurements are consistent with a negatively cooperative model in which the ligand-binding affinity at either binding site in an EGFR dimer is weaker when the other site is occupied by a ligand. This cooperativity is widely believed to be central to the effects of ligand concentration on EGFR-mediated intracellular signaling. Although the extracellular portion of the human EGFR dimer has been resolved crystallographically, the crystal structures do not reveal the structural origin of this negative cooperativity, which has remained unclear. Here we report the results of molecular dynamics simulations suggesting that asymmetrical interactions of the two binding sites with the membrane may be responsible (perhaps along with other factors) for this negative cooperativity. In particular, in our simulations the extracellular domains of an EGFR dimer spontaneously lay down on the membrane in an orientation in which favorable membrane contacts were made with one of the bound ligands, but could not be made with the other. Similar interactions were observed when EGFR was glycosylated, as it is in vivo.

Indexed as

Protein BindingProtein Structure, TertiaryAnimalsBinding SitesCell MembraneChickensComputational BiologyErbB ReceptorsLigandsMammalsMolecular Dynamics SimulationProtein ConformationZebrafishErbB ReceptorsLigands

Identifiers

PMID25058506
PMCPMC4109842
OpenAlexW2162666957

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.