Evidence map›Paper›PMID 28746849›Full record

ArticleBiophysical journal2017

Death Receptor 5 Activation Is Energetically Coupled to Opening of the Transmembrane Domain Dimer.

Nagamani Vunnam, Cecily Kristine Campbell-Bezat, Andrew K Lewis, Jonathan N Sachs

Open access · bronzeAbstract read
In one paragraph

Article in Biophysical journal, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing papers in PubMed
0.7field-weighted citation impact, top 31% 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

7 citing papers in PubMed, 11 citations in OpenAlex.

  1. Peptide-based allosteric inhibitor targets TNFR1 conformationally active region and disables receptor-ligand signaling complex.Proceedings of the National Academy of Sciences of the United States of America · 2024
    Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Conformational states of TNFR1 as a molecular switch for receptor function.Protein science : a publication of the Protein Society · 2020
    Article
  7. 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 1 institution in 1 country.

Nagamani VunnamDepartment of Biomedical Engineering, University of Minnesota, Minneapolis, Minnesota.
Cecily Kristine Campbell-BezatDepartment of Biomedical Engineering, University of Minnesota, Minneapolis, Minnesota.
Andrew K LewisDepartment of Biomedical Engineering, University of Minnesota, Minneapolis, Minnesota.
Jonathan N SachsDepartment of Biomedical Engineering, University of Minnesota, Minneapolis, Minnesota. Electronic address: jnsachs@umn.edu.
University of Minnesota · US

Funding

Dynamics of transmembrane dimers in TNF-Receptors by EPR and molecular simulationR01GM107175 · NIGMS · UNIVERSITY OF MINNESOTA · PI SACHS, JONATHAN N · 2014 to 2017
$1.3M
NIGMS NIH HHS R01 GM107175
6 · The paper itself

Abstract

The precise mechanism by which binding of tumor necrosis factor ligands to the extracellular domain of their corresponding receptors transmits signals across the plasma membrane has remained elusive. Recent studies have proposed that activation of several tumor necrosis factor receptors, including Death Receptor 5, involves a scissorlike opening of the disulfide-linked transmembrane (TM) dimer. Using time-resolved fluorescence resonance energy transfer, we provide, to our knowledge, the first direct biophysical evidence that Death Receptor 5 TM-dimers open in response to ligand binding. Then, to probe the importance of the closed-to-open TM domain transition in the overall energetics of receptor activation, we designed point-mutants (alanine to phenylalanine) in the predicted, tightly packed TM domain dimer interface. We hypothesized that the bulky residues should destabilize the closed conformation and eliminate the ∼3 kcal/mol energy barrier to TM domain opening and the ∼2 kcal/mol energy difference between the closed and open states, thus oversensitizing the receptor. To test this, we used all-atom molecular dynamics simulations of the isolated TM domain in explicit lipid bilayers coupled to thermodynamic potential of mean force calculations. We showed that single point mutants at the interface altered the energy landscape as predicted, but were not enough to completely eliminate the barrier to opening. However, the computational model did predict that a double mutation at i, i+4 positions at the center of the TM domain dimer eliminates the barrier and stabilizes the open conformation relative to the closed. We tested these mutants in cells with time-resolved fluorescence resonance energy transfer and death assays, and show remarkable agreement with the calculations. The single mutants had a small effect on TM domain separation and cell death, whereas the double mutant significantly increased the TM domain separation and more than doubled the sensitivity of cells to ligand stimulation.

Indexed as

AlanineBlotting, WesternCell SurvivalFluorescence Resonance Energy TransferHEK293 CellsHumansLipid BilayersMolecular Dynamics SimulationPhenylalaninePoint MutationProtein BindingProtein ConformationProtein MultimerizationProtein StabilityReceptors, TNF-Related Apoptosis-Inducing LigandThermodynamicsAlanineLipid BilayersPhenylalanineReceptors, TNF-Related Apoptosis-Inducing LigandTNFRSF10B protein, humanWater

Identifiers

PMID28746849
PMCPMC5529174
OpenAlexW2736381260

What OpenQuestion holds

Textmetadata
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.