Evidence map›Paper›PMID 40875847›Full record

ArticleScience (New York, N.Y.)2025

Architecture of the UBR4 complex, a giant E4 ligase central to eukaryotic protein quality control.

Daniel B Grabarczyk, Julian F Ehrmann, Paul Murphy, Woo Seok Yang, Robert Kurzbauer, Lillie E Bell, Luiza Deszcz, Jana Neuhold, Alexander Schleiffer, Alexandra Shulkina and 8 more

Abstract read
In one paragraph

Article in Science (New York, N.Y.), 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.

0numbers the graph read from it
0cells of the map it votes in
9citing 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

9 citing papers in PubMed.

  1. Article
  2. Article
  3. Mitochondrial presequences are more than just address labels.Protein science : a publication of the Protein Society · 2026
    Review
  4. Function and regulation of the mitochondrial stress response.Nature structural & molecular biology · 2026
    Review
  5. Review
  6. Article
  7. Review
  8. Article
  9. 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

18 authors.

Daniel B GrabarczykResearch Institute of Molecular Pathology, Vienna BioCenter (VBC), Vienna, Austria.ORCID 0000-0003-0216-7085
Julian F EhrmannResearch Institute of Molecular Pathology, Vienna BioCenter (VBC), Vienna, Austria.ORCID 0000-0003-2518-5681
Paul MurphyResearch Institute of Molecular Pathology, Vienna BioCenter (VBC), Vienna, Austria.
Woo Seok YangDepartment of Life Sciences, Korea University, Seoul, South Korea.ORCID 0000-0002-0022-0295
Robert KurzbauerResearch Institute of Molecular Pathology, Vienna BioCenter (VBC), Vienna, Austria.
Lillie E BellResearch Institute of Molecular Pathology, Vienna BioCenter (VBC), Vienna, Austria.ORCID 0009-0001-9398-4031
Luiza DeszczResearch Institute of Molecular Pathology, Vienna BioCenter (VBC), Vienna, Austria.ORCID 0000-0001-5004-3584
Jana NeuholdVienna Biocenter Core Facilities, Vienna BioCenter, Vienna, Austria.
Alexander SchleifferResearch Institute of Molecular Pathology, Vienna BioCenter (VBC), Vienna, Austria.ORCID 0000-0001-6251-2747
Alexandra ShulkinaVienna BioCenter PhD Program, Doctoral School of the University of Vienna and Medical University of Vienna, Vienna BioCenter (VBC), Vienna, Austria.
Juyeon LeeDepartment of Life Sciences, Korea University, Seoul, South Korea.ORCID 0009-0005-5036-5563
Jin Seok ShinDepartment of Life Sciences, Korea University, Seoul, South Korea.ORCID 0000-0002-3617-7954
Anton MeinhartResearch Institute of Molecular Pathology, Vienna BioCenter (VBC), Vienna, Austria.ORCID 0000-0002-0707-5860
Gijs A VersteegMax Perutz Labs, Vienna Biocenter (VBC), Vienna, Austria.ORCID 0000-0002-6150-2165
Eszter ZavodszkyMRC Laboratory of Molecular Biology, Cambridge, UK.ORCID 0000-0002-4123-8758
Hyun Kyu SongDepartment of Life Sciences, Korea University, Seoul, South Korea.ORCID 0000-0001-5684-4059
Ramanujan S HegdeMRC Laboratory of Molecular Biology, Cambridge, UK.ORCID 0000-0001-8338-852X
Tim ClausenResearch Institute of Molecular Pathology, Vienna BioCenter (VBC), Vienna, Austria.ORCID 0000-0003-1582-6924

Funding

Austrian Science Fund FWF DOC 112Austrian Science Fund FWF ESP 218
6 · The paper itself

Abstract

Eukaryotic cells have evolved sophisticated quality control mechanisms to eliminate aggregation-prone proteins that compromise cellular health. Central to this defense is the ubiquitin-proteasome system, where UBR4 acts as an essential E4 ubiquitin ligase, amplifying degradation marks on defective proteins. Cryo-electron microscopy analysis of UBR4 in complex with its cofactors KCMF1 and CALM1 reveals a massive 1.3-megadalton ring structure, featuring a central substrate-binding arena and flexibly attached catalytic units. Our structure shows how UBR4 binds substrate and extends lysine-48-specific ubiquitin chains. Efficient substrate targeting depends on both preubiquitination and specific N-degrons, with KCMF1 acting as a key substrate filter. The architecture of the E4 megacomplex is conserved across eukaryotes, but species-specific adaptations allow UBR4 to perform its precisely tuned quality control function in diverse cellular environments.

Indexed as

CalmodulinCalmodulin-Binding ProteinsDegronsProteolysisUbiquitin-Protein LigasesCatalytic DomainCryoelectron MicroscopyHumansProtein BindingProteostasisSaccharomyces cerevisiae ProteinsSubstrate SpecificityUbiquitinUbiquitinationCALM1 protein, humanCalmodulinCalmodulin-Binding ProteinsKCMF1 protein, humanSaccharomyces cerevisiae ProteinsUbiquitinUbiquitin-Protein LigasesUBR4 protein, human

Identifiers

PMID40875847
PMCPMC7618180

What OpenQuestion holds

Textmetadata
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 OpenQuestion graph.