Evidence map›Paper›PMID 34280187›Full record

ArticlePLoS computational biology2021

Multi-scale simulations of the T cell receptor reveal its lipid interactions, dynamics and the arrangement of its cytoplasmic region.

Dheeraj Prakaash, Graham P Cook, Oreste Acuto, Antreas C Kalli

Open access · goldAbstract read
In one paragraph

Article in PLoS computational biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.

0numbers the graph read from it
0cells of the map it votes in
16citing papers in PubMed
1.6field-weighted citation impact, top 16% 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

16 citing papers in PubMed, 28 citations in OpenAlex.

  1. Article
  2. Article
  3. A membrane insertion code for intrinsically disordered proteins.bioRxiv : the preprint server for biology · 2026
    Article
  4. Review
  5. Review
  6. Review
  7. Mechanical force matters in early T cell activation.Proceedings of the National Academy of Sciences of the United States of America · 2024
    Article
  8. T-cell virtuosity in ''knowing thyself".Frontiers in immunology · 2024
    Review
  9. Article
  10. Article
  11. Article
  12. Self-programmed dynamics of T cell receptor condensation.Proceedings of the National Academy of Sciences of the United States of America · 2023
    Article
  13. Review
  14. Article
  15. Article
  16. 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.

Dheeraj PrakaashLeeds Institute of Cardiovascular and Metabolic Medicine, School of Medicine, University of Leeds, Leeds, United Kingdom.ORCID 0000-0002-2209-9713
Graham P CookLeeds Institute of Medical Research at St James's, School of Medicine, University of Leeds, Leeds, United Kingdom.
Oreste AcutoSir William Dunn School of Pathology, University of Oxford, Oxford, United Kingdom.
Antreas C KalliLeeds Institute of Cardiovascular and Metabolic Medicine, School of Medicine, University of Leeds, Leeds, United Kingdom.ORCID 0000-0001-7156-9403
University of Leeds · GBUniversity of Oxford · GB

Funding

Wellcome Trust 200844/Z/16/ZWellcome Trust WT200844/Z/16/Z
6 · The paper itself

Abstract

The T cell receptor (TCR-CD3) initiates T cell activation by binding to peptides of Major Histocompatibility Complexes (pMHC). The TCR-CD3 topology is well understood but the arrangement and dynamics of its cytoplasmic tails remains unknown, limiting our grasp of the signalling mechanism. Here, we use molecular dynamics simulations and modelling to investigate the entire TCR-CD3 embedded in a model membrane. Our study demonstrates conformational changes in the extracellular and transmembrane domains, and the arrangement of the TCR-CD3 cytoplasmic tails. The cytoplasmic tails formed highly interlaced structures while some tyrosines within the immunoreceptor tyrosine-based activation motifs (ITAMs) penetrated the hydrophobic core of the membrane. Interactions between the cytoplasmic tails and phosphatidylinositol phosphate lipids in the inner membrane leaflet led to the formation of a distinct anionic lipid fingerprint around the TCR-CD3. These results increase our understanding of the TCR-CD3 dynamics and the importance of membrane lipids in regulating T cell activation.

Indexed as

Models, MolecularComputational BiologyComputer SimulationCryoelectron MicroscopyCytoplasmHumansLymphocyte ActivationMembrane LipidsMolecular Dynamics SimulationProtein ConformationProtein Interaction Domains and MotifsReceptor-CD3 Complex, Antigen, T-CellStatic ElectricityT-LymphocytesMembrane LipidsReceptor-CD3 Complex, Antigen, T-Cell

Identifiers

PMID34280187
PMCPMC8321403
OpenAlexW3185195276

What Socratic holds

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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 Socratic graph.