Evidence map›Paper›PMID 31399513›Full record

ArticleThe Journal of biological chemistry2019

Cryo-EM structure of the native rhodopsin dimer in nanodiscs.

Dorothy Yanling Zhao, Matthias Pöge, Takefumi Morizumi, Sahil Gulati, Ned Van Eps, Jianye Zhang, Przemyslaw Miszta, Slawomir Filipek, Julia Mahamid, Jürgen M Plitzko and 3 more

Abstract read
In one paragraph

Article in The Journal of biological chemistry, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 49 papers.

0numbers the graph read from it
0cells of the map it votes in
49citing 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

49 citing papers in PubMed.

  1. Article
  2. Review
  3. Article
  4. Structural analysis of rhodopsin states in megabody complexes.Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  5. Article
  6. The Nanodisc System for Investigating Protein-Lipid Interactions.Methods in molecular biology (Clifton, N.J.) · 2026
    Review
  7. Article
  8. A biased allosteric modulator functions as a molecular glue to induce βbioRxiv : the preprint server for biology · 2025
    Article
  9. Article
  10. Dimerization propensity of the βProceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  11. Article
  12. Molecular contacts in self-assembling clusters of membrane proteins.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  13. Review
  14. Review
  15. Review
  16. Article
  17. Article
  18. Article
  19. Quantitative analysis of sterol-modulated monomer-dimer equilibrium of the βProceedings of the National Academy of Sciences of the United States of America · 2023
    Article
  20. Nodavirus RNA replication crown architecture reveals proto-crown precursor and viral protein A conformational switching.Proceedings of the National Academy of Sciences of the United States of America · 2023
    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

13 authors.

Dorothy Yanling ZhaoDepartment of Biochemistry, University of Toronto, Toronto, Ontario M5S 1A8, Canada.
Matthias PögeDepartment of Molecular Structural Biology, Max-Planck Institute of Biochemistry, 82152 Martinsried, Germany.
Takefumi MorizumiDepartment of Biochemistry, University of Toronto, Toronto, Ontario M5S 1A8, Canada.ORCID 0000-0002-2785-209X
Sahil GulatiGavin Herbert Eye Institute and the Department of Ophthalmology, University of California, Irvine, California 92697.
Ned Van EpsDepartment of Biochemistry, University of Toronto, Toronto, Ontario M5S 1A8, Canada.
Jianye ZhangGavin Herbert Eye Institute and the Department of Ophthalmology, University of California, Irvine, California 92697.
Przemyslaw MisztaFaculty of Chemistry, Biological and Chemical Research Centre, University of Warsaw, Warsaw 02-093, Poland.
Slawomir FilipekFaculty of Chemistry, Biological and Chemical Research Centre, University of Warsaw, Warsaw 02-093, Poland.
Julia MahamidStructural and Computational Biology Unit, European Molecular Biology Laboratory, 69117 Heidelberg, Germany.
Jürgen M PlitzkoDepartment of Molecular Structural Biology, Max-Planck Institute of Biochemistry, 82152 Martinsried, Germany.
Wolfgang BaumeisterDepartment of Molecular Structural Biology, Max-Planck Institute of Biochemistry, 82152 Martinsried, Germany.
Oliver P ErnstDepartment of Biochemistry, University of Toronto, Toronto, Ontario M5S 1A8, Canada oliver.ernst@utoronto.ca.ORCID 0000-0002-8863-9444
Krzysztof PalczewskiGavin Herbert Eye Institute and the Department of Ophthalmology, University of California, Irvine, California 92697 kpalczew@uci.edu.ORCID 0000-0002-0788-545X

Funding

Novel therapies to inhibit Diabetic RetinopathyR24EY024864 · NEI · UNIVERSITY OF CALIFORNIA-IRVINE · PI KERN, TIMOTHY S · 2015 to 2019
$8.1M
Use of systems pharmacology to prevent rod and cone photoreceptor degenerationR24EY027283 · NEI · UNIVERSITY OF CALIFORNIA-IRVINE · PI PALCZEWSKI, KRZYSZTOF · 2017 to 2021
$7.9M
NEI NIH HHS R24 EY024864NEI NIH HHS R24 EY027283
6 · The paper itself

Abstract

Imaging of rod photoreceptor outer-segment disc membranes by atomic force microscopy and cryo-electron tomography has revealed that the visual pigment rhodopsin, a prototypical class A G protein-coupled receptor (GPCR), can organize as rows of dimers. GPCR dimerization and oligomerization offer possibilities for allosteric regulation of GPCR activity, but the detailed structures and mechanism remain elusive. In this investigation, we made use of the high rhodopsin density in the native disc membranes and of a bifunctional cross-linker that preserves the native rhodopsin arrangement by covalently tethering rhodopsins via Lys residue side chains. We purified cross-linked rhodopsin dimers and reconstituted them into nanodiscs for cryo-EM analysis. We present cryo-EM structures of the cross-linked rhodopsin dimer as well as a rhodopsin dimer reconstituted into nanodiscs from purified monomers. We demonstrate the presence of a preferential 2-fold symmetrical dimerization interface mediated by transmembrane helix 1 and the cytoplasmic helix 8 of rhodopsin. We confirmed this dimer interface by double electron-electron resonance measurements of spin-labeled rhodopsin. We propose that this interface and the arrangement of two protomers is a prerequisite for the formation of the observed rows of dimers. We anticipate that the approach outlined here could be extended to other GPCRs or membrane receptors to better understand specific receptor dimerization mechanisms.

Indexed as

Protein MultimerizationAnimalsCattleCryoelectron MicroscopyHEK293 CellsHumansNanoparticlesProtein DomainsRhodopsinRhodopsincell signalingcryo-electron microscopy (cryo-EM)double electron-electron resonance (DEER)G protein-coupled receptor (GPCR)helix 8 (H8)receptorretinaretinoid-binding proteinrhodopsinrhodopsin dimerizationrod outer segmenttransducintransmembrane helix 1 (TM1)

Identifiers

PMID31399513
PMCPMC6768649

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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.