Single-base resolution mapping of H1-nucleosome interactions and 3D organization of the nucleosome

Sajad Hussain Syed, Damien Goutte-Gattat, Nils Becker, Sam Meyer, Manu Shubhdarshan Shukla, Jeffrey J. Hayes, Ralf Everaers, Dimitar Angelov, Jan Bednar, Stefan Dimitrov

Research output: Contribution to journalArticle

126 Citations (Scopus)

Abstract

Despite the key role of the linker histone H1 in chromatin structure and dynamics, its location and interactions with nucleosomal DNA have not been elucidated. In this work we have used a combination of electron cryomicroscopy, hydroxyl radical footprinting, and nanoscale modeling to analyze the structure of precisely positioned mono-, di-, and trinucleosomes containing physiologically assembled full-length histone H1 or truncated mutants of this protein. Single-base resolution •OH footprinting shows that the globular domain of histone H1 (GH1) interacts with the DNA minor groove located at the center of the nucleosome and contacts a 10-bp region of DNA localized symmetrically with respect to the nucleosomal dyad. In addition, GH1 interacts with and organizes about one helical turn of DNA in each linker region of the nucleosome.Wealso find that a seven amino acid residue region (121-127) in the COOH terminus of histone H1 was required for the formation of the stem structure of the linker DNA. A molecular model on the basis of these data and coarse-grain DNA mechanics provides novel insights on how the different domains of H1 interact with the nucleosome and predicts a specific H1-mediated stem structure within linker DNA.

Original languageEnglish
Pages (from-to)9620-9625
Number of pages6
JournalProceedings of the National Academy of Sciences of the United States of America
Volume107
Issue number21
DOIs
Publication statusPublished - 25 May 2010
Externally publishedYes

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Nucleosomes
DNA
Histones
Cryoelectron Microscopy
Molecular Models
Mutant Proteins
Mechanics
Hydroxyl Radical
Chromatin
Amino Acids

Keywords

  • Chromatin higher order structure
  • Nucleosome structure

ASJC Scopus subject areas

  • General

Cite this

Single-base resolution mapping of H1-nucleosome interactions and 3D organization of the nucleosome. / Syed, Sajad Hussain; Goutte-Gattat, Damien; Becker, Nils; Meyer, Sam; Shukla, Manu Shubhdarshan; Hayes, Jeffrey J.; Everaers, Ralf; Angelov, Dimitar; Bednar, Jan; Dimitrov, Stefan.

In: Proceedings of the National Academy of Sciences of the United States of America, Vol. 107, No. 21, 25.05.2010, p. 9620-9625.

Research output: Contribution to journalArticle

Syed, Sajad Hussain ; Goutte-Gattat, Damien ; Becker, Nils ; Meyer, Sam ; Shukla, Manu Shubhdarshan ; Hayes, Jeffrey J. ; Everaers, Ralf ; Angelov, Dimitar ; Bednar, Jan ; Dimitrov, Stefan. / Single-base resolution mapping of H1-nucleosome interactions and 3D organization of the nucleosome. In: Proceedings of the National Academy of Sciences of the United States of America. 2010 ; Vol. 107, No. 21. pp. 9620-9625.
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