ArticlebioRxiv : the preprint server for biology2024
HMGB1 restores a dynamic chromatin environment in the presence of linker histone by deforming nucleosomal DNA.
Hayden S Saunders, Un Seng Chio, Camille M Moore, Vijay Ramani, Yifan Cheng, Geeta J Narlikar
Abstract readPreprint
In one paragraphArticle in bioRxiv : the preprint server for biology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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4 · The recordCorrections and comments
5 · Who and what moneyAuthors and funding
6 authors.
Hayden S SaundersDepartment of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA 94158, USA.ORCID 0000-0002-7582-3031 Un Seng ChioDepartment of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA 94158, USA.
Camille M MooreDepartment of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA 94158, USA.
Vijay RamaniDepartment of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA 94158, USA.
Yifan ChengDepartment of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA 94158, USA.
Geeta J NarlikarDepartment of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA 94158, USA.
Funding
Measuring the lifetime and mechanical stability of phase-separated heterochromatin domainsR35GM127020 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI GEETA J NARLIKAR · 2018 to 2026
$7.3MTetrad: Genetics, Cell Biology, Biochemistry and Molecular Biology Training GrantT32GM139786 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Natalia Jura, David Paul Toczyski · 2021 to 2026
$6.5MModulation and functional characterization of protein condensation in chromatin organizationU01DK127421 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI HUANG, BO, NARLIKAR, GEETA J · 2020 to 2024
$5.4MSINGLE-CELL CHEMICAL TRANSCRIPTOMIC DISSECTION OF AN ESSENTIAL TRANSCRIPTION FACTOR NETWORKDP2HG012442 · NHGRI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI RAMANI, VIJAY · 2021 to 2024
$2.6MAdvancing cryo-EM technology to address difficult biological questionsR35GM140847 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Yifan Cheng · 2021 to 2026
$2.1MAcquisition of an electron microscope for high-resolution single particle cryo-EMS10OD021741 · OD · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI CHENG, YIFAN · 2016 to 2016
$2.0MLinux cluster for near atomic resolution single particle cryo-EMS10OD020054 · OD · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI CHENG, YIFAN · 2015 to 2015
$456kMolecular mechanisms of the ACF chromatin remodeling complexF32GM137463 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI CHIO, UN SENG · 2020 to 2022
$201kNHGRI NIH HHS DP2 HG012442NIDDK NIH HHS U01 DK127421NIGMS NIH HHS F32 GM137463NIGMS NIH HHS R35 GM127020NIGMS NIH HHS R35 GM140847NIGMS NIH HHS T32 GM139786NIH HHS S10 OD020054NIH HHS S10 OD021741
6 · The paper itselfAbstract
The essential architectural protein HMGB1 increases accessibility of nucleosomal DNA and counteracts the effects of linker histone H1. However, HMGB1 is less abundant than H1 and binds nucleosomes more weakly raising the question of how HMGB1 effectively competes with H1. Here, we show that HMGB1 rescues H1's inhibition of nucleosomal DNA accessibility without displacing H1. HMGB1 also increases the dynamics of condensed, H1-bound chromatin. Cryo-EM shows that HMGB1 binds at internal locations on a nucleosome and locally distorts the DNA. These sites, which are away from the binding site of H1, explain how HMGB1 and H1 co-occupy a nucleosome. Our findings lead to a model where HMGB1 counteracts the activity of H1 by distorting nucleosomal DNA and by contacting the H1 C-terminal tail. Compared to direct competition, nucleosome co-occupancy by HMGB1 and H1 allows a greater diversity of dynamic chromatin states and may be generalizable to other chromatin regulators.
Identifiers
PMID39229246
PMCPMC11370580
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