Evidence map›Paper›PMID 39384768›Full record

ArticleNature communications2024

Structural basis of μ-opioid receptor targeting by a nanobody antagonist.

Jun Yu, Amit Kumar, Xuefeng Zhang, Charlotte Martin, Kevin Van Holsbeeck, Pierre Raia, Antoine Koehl, Toon Laeremans, Jan Steyaert, Aashish Manglik and 3 more

Abstract read
In one paragraph

Article in Nature communications, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.

0numbers the graph read from it
0cells of the map it votes in
27citing 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

27 citing papers in PubMed.

  1. Article
  2. Review
  3. Structural analysis of rhodopsin states in megabody complexes.Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  4. Review
  5. Article
  6. Article
  7. Review
  8. Review
  9. Review
  10. Article
  11. Article
  12. Review
  13. Review
  14. Article
  15. Article
  16. Review
  17. Article
  18. Epitope-directed selection of GPCR nanobody ligands with evolvable function.Proceedings of the National Academy of Sciences of the United States of America · 2025
    Article
  19. Article
  20. Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

13 authors.

Jun Yu *Department of Molecular and Cellular Biology, University of Geneva, Geneva, Switzerland.
Amit Kumar *Department of Cell Physiology and Metabolism, University of Geneva, Geneva, Switzerland.
Xuefeng ZhangDepartment of Molecular and Cellular Biology, University of Geneva, Geneva, Switzerland.ORCID 0000-0002-5222-7042
Charlotte MartinDepartments of Chemistry and Bioengineering Sciences, Vrije Universiteit Brussel, Brussels, Belgium.
Kevin Van HolsbeeckDepartments of Chemistry and Bioengineering Sciences, Vrije Universiteit Brussel, Brussels, Belgium.ORCID 0000-0002-9345-4962
Pierre RaiaDepartment of Plant Sciences, University of Geneva, Geneva, Switzerland.ORCID 0000-0003-3469-1922
Antoine KoehlDepartment of Electrical Engineering and Computer Sciences, University of California, Berkeley, CA, USA.
Toon LaeremansConfo Therapeutics N.V., Gent, Belgium.
Jan SteyaertStructural Biology Brussels, Vrije Universiteit Brussel, Brussels, Belgium.ORCID 0000-0002-3825-874X
Aashish ManglikDepartment of Pharmaceutical Chemistry, University of California, San Francisco, CA, USA.ORCID 0000-0002-7173-3741
Steven BalletDepartments of Chemistry and Bioengineering Sciences, Vrije Universiteit Brussel, Brussels, Belgium.ORCID 0000-0003-4123-1641
Andreas BolandDepartment of Molecular and Cellular Biology, University of Geneva, Geneva, Switzerland. andreas.boland@unige.ch.ORCID 0000-0003-1218-6714
Miriam StoeberDepartment of Cell Physiology and Metabolism, University of Geneva, Geneva, Switzerland. miriam.stoeber@unige.ch.ORCID 0000-0002-5210-2864

Funding

ChimeraX -- Next Generation Visualization and Analysis Software for Multiscale ModelingR01GM129325 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI FERRIN, THOMAS E · 2018 to 2025
$5.2M
Glacios™ Cryo Transmission Electron Microscope with 200 kV XFEG opticsS10OD026881 · OD · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI CHENG, YIFAN · 2019 to 2019
$1.8M
NIGMS NIH HHS R01 GM129325NIH HHS S10 OD026881Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung (Swiss National Science Foundation) PCEFP3_181282Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung (Swiss National Science Foundation) TMSGI3_211581Vrije Universiteit Brussel (Université Libre de Bruxelles) Strategic Research Program (SRP50)
6 · The paper itself

Abstract

The μ-opioid receptor (μOR), a prototypical G protein-coupled receptor (GPCR), is the target of opioid analgesics such as morphine and fentanyl. Due to the severe side effects of current opioid drugs, there is considerable interest in developing novel modulators of μOR function. Most GPCR ligands today are small molecules, however biologics, including antibodies and nanobodies, represent alternative therapeutics with clear advantages such as affinity and target selectivity. Here, we describe the nanobody NbE, which selectively binds to the μOR and acts as an antagonist. We functionally characterize NbE as an extracellular and genetically encoded μOR ligand and uncover the molecular basis for μOR antagonism by determining the cryo-EM structure of the NbE-μOR complex. NbE displays a unique ligand binding mode and achieves μOR selectivity by interactions with the orthosteric pocket and extracellular receptor loops. Based on a β-hairpin loop formed by NbE that deeply protrudes into the μOR, we design linear and cyclic peptide analogs that recapitulate NbE's antagonism. The work illustrates the potential of nanobodies to uniquely engage with GPCRs and describes lower molecular weight μOR ligands that can serve as a basis for therapeutic developments.

Indexed as

Cryoelectron MicroscopyReceptors, Opioid, muSingle-Domain AntibodiesAnalgesics, OpioidAnimalsBinding SitesHEK293 CellsHumansLigandsModels, MolecularPeptides, CyclicProtein BindingAnalgesics, OpioidLigandsPeptides, CyclicReceptors, Opioid, muSingle-Domain Antibodies

Identifiers

PMID39384768
PMCPMC11464722

What OpenQuestion holds

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LicenceCC BY-NC-ND
Read underepoch 390

Registered trials

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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.