Evidence map›Paper›PMID 38519511›Full record

ArticleNature communications2024

Structure of the human Bre1 complex bound to the nucleosome.

Shuhei Onishi, Kotone Uchiyama, Ko Sato, Chikako Okada, Shunsuke Kobayashi, Keisuke Hamada, Tomohiro Nishizawa, Osamu Nureki, Kazuhiro Ogata, Toru Sengoku

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 10 papers.

0numbers the graph read from it
0cells of the map it votes in
10citing 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

10 citing papers in PubMed.

  1. Article
  2. Review
  3. Article
  4. Article
  5. Article
  6. Decoding RNF20: an epigenetic modifier and beyond.Frontiers in cell and developmental biology · 2026
    Review
  7. Article
  8. Article
  9. Article
  10. 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

10 authors.

Shuhei OnishiDepartment of Biochemistry, Yokohama City University Graduate School of Medicine, Yokohama, Japan.ORCID http://orcid.org/0000-0002-4623-6276
Kotone UchiyamaDepartment of Biochemistry, Yokohama City University Graduate School of Medicine, Yokohama, Japan.ORCID http://orcid.org/0009-0003-7163-0966
Ko SatoDepartment of Biochemistry, Yokohama City University Graduate School of Medicine, Yokohama, Japan.
Chikako OkadaDepartment of Biochemistry, Yokohama City University Graduate School of Medicine, Yokohama, Japan.
Shunsuke KobayashiDepartment of Biochemistry, Yokohama City University Graduate School of Medicine, Yokohama, Japan.
Keisuke HamadaDepartment of Biochemistry, Yokohama City University Graduate School of Medicine, Yokohama, Japan.
Tomohiro NishizawaDepartment of Biological Sciences, Graduate School of Science, The University of Tokyo, Tokyo, Japan.ORCID http://orcid.org/0000-0001-7463-8398
Osamu NurekiDepartment of Biological Sciences, Graduate School of Science, The University of Tokyo, Tokyo, Japan.ORCID http://orcid.org/0000-0003-1813-7008
Kazuhiro OgataDepartment of Biochemistry, Yokohama City University Graduate School of Medicine, Yokohama, Japan. ogata@yokohama-cu.ac.jp.
Toru SengokuDepartment of Biochemistry, Yokohama City University Graduate School of Medicine, Yokohama, Japan. tsengoku@yokohama-cu.ac.jp.ORCID http://orcid.org/0000-0001-9461-8714

Funding

MEXT | Japan Society for the Promotion of Science (JSPS) 21H05161
6 · The paper itself

Abstract

Histone H2B monoubiquitination (at Lys120 in humans) regulates transcription elongation and DNA repair. In humans, H2B monoubiquitination is catalyzed by the heterodimeric Bre1 complex composed of Bre1A/RNF20 and Bre1B/RNF40. The Bre1 proteins generally function as tumor suppressors, while in certain cancers, they facilitate cancer cell proliferation. To obtain structural insights of H2BK120 ubiquitination and its regulation, we report the cryo-electron microscopy structure of the human Bre1 complex bound to the nucleosome. The two RING domains of Bre1A and Bre1B recognize the acidic patch and the nucleosomal DNA phosphates around SHL 6.0-6.5, which are ideally located to recruit the E2 enzyme and ubiquitin for H2BK120-specific ubiquitination. Mutational experiments suggest that the two RING domains bind in two orientations and that ubiquitination occurs when Bre1A binds to the acidic patch. Our results provide insights into the H2BK120-specific ubiquitination by the Bre1 proteins and suggest that H2B monoubiquitination can be regulated by nuclesomal DNA flexibility.

Indexed as

NeoplasmsNucleosomesCryoelectron MicroscopyDNAHistonesHumansUbiquitinationUbiquitin-Protein LigasesDNAHistonesNucleosomesRNF20 protein, humanUbiquitin-Protein Ligases

Identifiers

PMID38519511
PMCPMC10959955

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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.