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The structure of DNA in the nucleosome core

Author

Listed:
  • Timothy J. Richmond

    (ETH Zürich, Institut für Molekularbiologie und Biophysik, ETH-Hönggerberg)

  • Curt A. Davey

    (ETH Zürich, Institut für Molekularbiologie und Biophysik, ETH-Hönggerberg)

Abstract

The 1.9-Å-resolution crystal structure of the nucleosome core particle containing 147 DNA base pairs reveals the conformation of nucleosomal DNA with unprecedented accuracy. The DNA structure is remarkably different from that in oligonucleotides and non-histone protein–DNA complexes. The DNA base-pair-step geometry has, overall, twice the curvature necessary to accommodate the DNA superhelical path in the nucleosome. DNA segments bent into the minor groove are either kinked or alternately shifted. The unusual DNA conformational parameters induced by the binding of histone protein have implications for sequence-dependent protein recognition and nucleosome positioning and mobility. Comparison of the 147-base-pair structure with two 146-base-pair structures reveals alterations in DNA twist that are evidently common in bulk chromatin, and which are of probable importance for chromatin fibre formation and chromatin remodelling.

Suggested Citation

  • Timothy J. Richmond & Curt A. Davey, 2003. "The structure of DNA in the nucleosome core," Nature, Nature, vol. 423(6936), pages 145-150, May.
    • Handle: RePEc:nat:nature:v:423:y:2003:i:6936:d:10.1038_nature01595
    DOI: 10.1038/nature01595
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    Citations

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    Cited by:

    1. Segal Mark R, 2008. "Re-Cracking the Nucleosome Positioning Code," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 7(1), pages 1-24, April.
    2. Michaël Noë & Dimitrios Mathios & Akshaya V. Annapragada & Shashikant Koul & Zacharia H. Foda & Jamie E. Medina & Stephen Cristiano & Christopher Cherry & Daniel C. Bruhm & Noushin Niknafs & Vilmos Ad, 2024. "DNA methylation and gene expression as determinants of genome-wide cell-free DNA fragmentation," Nature Communications, Nature, vol. 15(1), pages 1-11, December.
    3. Dana Cohen, 2022. "General Designs Reveal a Purine-Pyrimidine Structural Code in Human DNA," Mathematics, MDPI, vol. 10(15), pages 1-20, August.
    4. Xinyun Jing & Niubing Zhang & Xiaojuan Zhou & Ping Chen & Jie Gong & Kaixiang Zhang & Xueting Wu & Wenjuan Cai & Bang-Ce Ye & Pei Hao & Guo-ping Zhao & Sheng Yang & Xuan Li, 2024. "Creating a bacterium that forms eukaryotic nucleosome core particles," Nature Communications, Nature, vol. 15(1), pages 1-16, December.

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