Evidence map›Paper›PMID 39117603›Full record

ArticleNature communications2024

Human tumor suppressor protein Pdcd4 binds at the mRNA entry channel in the 40S small ribosomal subunit.

Jailson Brito Querido, Masaaki Sokabe, Irene Díaz-López, Yuliya Gordiyenko, Philipp Zuber, Yifei Du, Lucas Albacete-Albacete, V Ramakrishnan, Christopher S Fraser

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 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing 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

14 citing papers in PubMed.

  1. RNAViruses · 2026
    Review
  2. Structural basis for emetine inhibition of ribosome translocation inbioRxiv : the preprint server for biology · 2026
    Article
  3. Article
  4. Article
  5. Purification and characterization of recombinant human translation initiation factor eIF3.Protein science : a publication of the Protein Society · 2026
    Article
  6. Article
  7. Detection and Characterization of the Eukaryotic Vacant Ribosome.International journal of molecular sciences · 2025
    Review
  8. Review
  9. Article
  10. Article
  11. Article
  12. Widespread discordance between mRNA expression, protein abundance andbioRxiv : the preprint server for biology · 2025
    Article
  13. Circadian Control of Protein Synthesis.BioEssays : news and reviews in molecular, cellular and developmental biology · 2025
    Review
  14. The Impact of Pdcd4, a Translation Inhibitor, on Drug Resistance.Pharmaceuticals (Basel, Switzerland) · 2024
    Review
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

9 authors.

Jailson Brito Querido *MRC Laboratory of Molecular Biology, Cambridge, UK. jquerido@umich.edu.ORCID 0000-0002-1438-1268
Masaaki Sokabe *Department of Molecular and Cellular Biology, College of Biological Sciences, University of California, Davis, CA, USA.ORCID 0000-0002-1824-4818
Irene Díaz-López *MRC Laboratory of Molecular Biology, Cambridge, UK.ORCID 0000-0002-4703-4991
Yuliya GordiyenkoMRC Laboratory of Molecular Biology, Cambridge, UK.
Philipp ZuberMRC Laboratory of Molecular Biology, Cambridge, UK.
Yifei DuMRC Laboratory of Molecular Biology, Cambridge, UK.ORCID 0000-0002-9362-8766
Lucas Albacete-AlbaceteMRC Laboratory of Molecular Biology, Cambridge, UK.
V RamakrishnanMRC Laboratory of Molecular Biology, Cambridge, UK. ramak@mrc-lmb.cam.ac.uk.ORCID 0000-0002-4699-2194
Christopher S FraserDepartment of Molecular and Cellular Biology, College of Biological Sciences, University of California, Davis, CA, USA. csfraser@ucdavis.edu.ORCID 0000-0001-9626-7743

Funding

XenograftP30CA046592 · NCI · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI Eric R. Fearon · 1988 to 2026
$178.2M
The mechanism of mRNA recruitment to the human ribosome.R01GM092927 · NIGMS · UNIVERSITY OF CALIFORNIA AT DAVIS · PI FRASER, CHRISTOPHER S · 2010 to 2022
$4.1M
The mechanisms of mRNA recruitment to the human ribosomeR35GM152137 · NIGMS · UNIVERSITY OF CALIFORNIA AT DAVIS · PI Christopher S Fraser · 2024 to 2026
$1.3M
Compute Cluster for in vitro and in situ Analysis of Molecular MachinesS10OD030275 · OD · UNIVERSITY OF MICHIGAN AT ANN ARBOR · PI OHI, MELANIE DIANE · 2021 to 2021
$600k
Medical Research Council MC_U105184332Medical Research Council MC_UP_1201/32NCI NIH HHS P30 CA046592NIGMS NIH HHS R01 GM092927NIGMS NIH HHS R35 GM152137NIH HHS S10 OD030275Wellcome Trust
6 · The paper itself

Abstract

Translation is regulated mainly in the initiation step, and its dysregulation is implicated in many human diseases. Several proteins have been found to regulate translational initiation, including Pdcd4 (programmed cell death gene 4). Pdcd4 is a tumor suppressor protein that prevents cell growth, invasion, and metastasis. It is downregulated in most tumor cells, while global translation in the cell is upregulated. To understand the mechanisms underlying translational control by Pdcd4, we used single-particle cryo-electron microscopy to determine the structure of human Pdcd4 bound to 40S small ribosomal subunit, including Pdcd4-40S and Pdcd4-40S-eIF4A-eIF3-eIF1 complexes. The structures reveal the binding site of Pdcd4 at the mRNA entry site in the 40S, where the C-terminal domain (CTD) interacts with eIF4A at the mRNA entry site, while the N-terminal domain (NTD) is inserted into the mRNA channel and decoding site. The structures, together with quantitative binding and in vitro translation assays, shed light on the critical role of the NTD for the recruitment of Pdcd4 to the ribosomal complex and suggest a model whereby Pdcd4 blocks the eIF4F-independent role of eIF4A during recruitment and scanning of the 5' UTR of mRNA.

Indexed as

Apoptosis Regulatory ProteinsCryoelectron MicroscopyProtein BindingRibosome Subunits, Small, EukaryoticRNA-Binding ProteinsRNA, MessengerBinding SitesEukaryotic Initiation Factor-4AHumansModels, MolecularProtein BiosynthesisApoptosis Regulatory ProteinsEukaryotic Initiation Factor-4APDCD4 protein, humanRNA-Binding ProteinsRNA, Messenger

Identifiers

PMID39117603
PMCPMC11310195

What OpenQuestion holds

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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.