Evidence map›Paper›PMID 38920622›Full record

ArticleEpigenomes2024

Structural and Biochemical Characterization of the Nucleosome Containing Variants H3.3 and H2A.Z.

Harry Jung, Vladyslava Sokolova, Gahyun Lee, Victoria Rose Stevens, Dongyan Tan

Abstract read
In one paragraph

Article in Epigenomes, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing 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

5 citing papers in PubMed.

  1. Article
  2. Review
  3. Article
  4. DDM1 Maintains Heterochromatin by Regulating Histone Variants.International journal of molecular sciences · 2025
    Review
  5. 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

5 authors.

Harry JungDepartment of Pharmacological Sciences, Stony Brook University, Stony Brook, New York, NY 11794, USA.ORCID 0000-0001-5109-800X
Vladyslava SokolovaDepartment of Pharmacological Sciences, Stony Brook University, Stony Brook, New York, NY 11794, USA.ORCID 0000-0002-0645-7891
Gahyun LeeDepartment of Pharmacological Sciences, Stony Brook University, Stony Brook, New York, NY 11794, USA.ORCID 0009-0008-1464-1809
Victoria Rose StevensDepartment of Pharmacological Sciences, Stony Brook University, Stony Brook, New York, NY 11794, USA.
Dongyan TanDepartment of Pharmacological Sciences, Stony Brook University, Stony Brook, New York, NY 11794, USA.ORCID 0000-0002-6796-6745

Funding

Pacific Northwest Center for Cryo-EM - Screening supplementU24GM129547 · NIGMS · OREGON HEALTH & SCIENCE UNIVERSITY · PI EVANS, JAMES E, GOUAUX, JAMES E · 2018 to 2023
$54.8M
UVA molecular electron microscopy core for the Mid-Atlantic regionU24GM116790 · NIGMS · UNIVERSITY OF VIRGINIA · PI GALKIN, VITOLD, SAMSO, MONTSERRAT · 2017 to 2021
$2.9M
Dynamics and Regulation of Chromatin in DNA MetabolismR35GM133611 · NIGMS · STATE UNIVERSITY NEW YORK STONY BROOK · PI TAN, DONGYAN · 2019 to 2023
$2.1M
Molecular Electron Microscopy Core Facility ImprovementsG20RR031199 · NCRR · UNIVERSITY OF VIRGINIA · PI SHUPNIK, MARGARET A · 2010 to 2010
$2.0M
300 keV Liquid Helium Robotic MicroscopeS10RR025067 · NCRR · UNIVERSITY OF VIRGINIA · PI EGELMAN, EDWARD H. · 2009 to 2009
$2.0M
A 200KV CRYO-TEM FOR IMAGING BIOLOGICAL STRUCTURESS10OD012272 · OD · STATE UNIVERSITY NEW YORK STONY BROOK · PI NEIMAN, AARON M · 2015 to 2015
$2.0M
National Science Foundation 1942049NCRR NIH HHS G20 RR031199NCRR NIH HHS S10 RR025067NIGMS NIH HHS 1R35GM133611NIGMS NIH HHS R35 GM133611NIGMS NIH HHS U24 GM116790NIGMS NIH HHS U24 GM129547NIH HHS S10 OD012272
6 · The paper itself

Abstract

Variant H3.3, along with H2A.Z, is notably enriched at promoter regions and is commonly associated with transcriptional activation. However, the specific molecular mechanisms through which H3.3 influences chromatin dynamics at transcription start sites, and its role in gene regulation, remain elusive. Using a combination of biochemistry and cryo-electron microscopy (cryo-EM), we show that the inclusion of H3.3 alone does not induce discernible changes in nucleosome DNA dynamics. Conversely, the presence of both H3.3 and H2A.Z enhances DNA's flexibility similarly to H2A.Z alone. Interestingly, our findings suggest that the presence of H3.3 in the H2A.Z nucleosome provides slightly increased protection to DNA at internal sites within the nucleosome. These results imply that while H2A.Z at active promoters promotes the formation of more accessible nucleosomes with increased DNA accessibility to facilitate transcription, the simultaneous presence of H3.3 offers an additional mechanism to fine-tune nucleosome accessibility and the chromatin environment.

Indexed as

chromatinH2A.ZH3.3histone variantnucleosome

Identifiers

PMID38920622
PMCPMC11203148

What OpenQuestion holds

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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.