Evidence map›Paper›PMID 39106311›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2024

Leveraging coevolutionary insights and AI-based structural modeling to unravel receptor-peptide ligand-binding mechanisms.

Simon Snoeck, Hyun Kyung Lee, Marc W Schmid, Kyle W Bender, Matthias J Neeracher, Alvaro D Fernández-Fernández, Julia Santiago, Cyril Zipfel

Abstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.

0numbers the graph read from it
0cells of the map it votes in
26citing 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

26 citing papers in PubMed.

  1. Review
  2. Article
  3. How SCREW finds its NUT.Nature plants · 2026
    Article
  4. Review
  5. Article
  6. Mechanisms and balanced regulation of plant immunity.Nature reviews. Molecular cell biology · 2026
    Review
  7. Article
  8. Review
  9. Diversification and deployment of PRR and NLR immune receptors in potato.The Plant journal : for cell and molecular biology · 2026
    Review
  10. Review
  11. Processing and release of endogenous immunogenic peptide signals.The Plant journal : for cell and molecular biology · 2026
    Review
  12. The transformative power of structural predictions with AI in plant science.The Plant journal : for cell and molecular biology · 2026
    Review
  13. Review
  14. Article
  15. Article
  16. Article
  17. Article
  18. Article
  19. Article
  20. mamp-ml: A deep learning approach to epitope immunogenicity in plants.bioRxiv : the preprint server for biology · 2025
    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

8 authors.

Simon SnoeckDepartment of Plant and Microbial Biology (IPMB), Zurich-Basel Plant Science Center, University of Zurich, Zurich 8008, Switzerland.ORCID 0000-0002-5288-0308
Hyun Kyung LeeThe Plant Signaling Mechanisms Laboratory, Department of Plant Molecular Biology, University of Lausanne, Lausanne 1015, Switzerland.
Marc W SchmidMWSchmid GmbH, Glarus 8750, Switzerland.
Kyle W BenderDepartment of Plant and Microbial Biology (IPMB), Zurich-Basel Plant Science Center, University of Zurich, Zurich 8008, Switzerland.ORCID 0000-0002-1805-8097
Matthias J NeeracherDepartment of Plant and Microbial Biology (IPMB), Zurich-Basel Plant Science Center, University of Zurich, Zurich 8008, Switzerland.ORCID 0009-0007-4274-5595
Alvaro D Fernández-FernándezDepartment of Plant and Microbial Biology (IPMB), Zurich-Basel Plant Science Center, University of Zurich, Zurich 8008, Switzerland.ORCID 0000-0003-4770-9757
Julia SantiagoThe Plant Signaling Mechanisms Laboratory, Department of Plant Molecular Biology, University of Lausanne, Lausanne 1015, Switzerland.ORCID 0000-0002-5765-6495
Cyril ZipfelDepartment of Plant and Microbial Biology (IPMB), Zurich-Basel Plant Science Center, University of Zurich, Zurich 8008, Switzerland.ORCID 0000-0003-4935-8583

Funding

EC | European Research Council (ERC) 773153European Molecular Biology Organization (EMBO) 580-2022Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung (SNF) 310030_204526
6 · The paper itself

Abstract

Secreted signaling peptides are central regulators of growth, development, and stress responses, but specific steps in the evolution of these peptides and their receptors are not well understood. Also, the molecular mechanisms of peptide-receptor binding are only known for a few examples, primarily owing to the limited availability of protein structural determination capabilities to few laboratories worldwide. Plants have evolved a multitude of secreted signaling peptides and corresponding transmembrane receptors. Stress-responsive SERINE RICH ENDOGENOUS PEPTIDES (SCOOPs) were recently identified. Bioactive SCOOPs are proteolytically processed by subtilases and are perceived by the leucine-rich repeat receptor kinase MALE DISCOVERER 1-INTERACTING RECEPTOR-LIKE KINASE 2 (MIK2) in the model plant

Indexed as

ArabidopsisArabidopsis ProteinsEvolution, MolecularLigandsModels, MolecularPeptidesPhosphotransferasesProtein BindingProtein Serine-Threonine KinasesSignal TransductionArabidopsis ProteinsAt3g51550 protein, ArabidopsisLigandsPeptidesPhosphotransferasesProtein Serine-Threonine Kinasesevolutionligandpeptidereceptorstructure prediction

Identifiers

PMID39106311
PMCPMC11331138

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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.