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The Arp8 and Arp4 module acts as a DNA sensor controlling INO80 chromatin remodeling

Author

Listed:
  • Sandipan Brahma

    (The University of Texas MD Anderson Cancer Center
    MD Anderson Cancer Center
    Fred Hutchinson Cancer Research Center)

  • Mzwanele Ngubo

    (The University of Texas MD Anderson Cancer Center
    MD Anderson Cancer Center)

  • Somnath Paul

    (The University of Texas MD Anderson Cancer Center
    MD Anderson Cancer Center)

  • Maheshi Udugama

    (Southern Illinois University
    Monash University)

  • Blaine Bartholomew

    (The University of Texas MD Anderson Cancer Center
    MD Anderson Cancer Center)

Abstract

Nuclear actin and actin-related proteins (Arps) are key components of chromatin remodeling and modifying complexes. Although Arps are essential for the functions of chromatin remodelers, their specific roles and mechanisms are unclear. Here we define the nucleosome binding interfaces and functions of the evolutionarily conserved Arps in the yeast INO80 chromatin remodeling complex. We show that the N-terminus of Arp8, C-terminus of Arp4 and the HSA domain of Ino80 bind extranucleosomal DNA 37–51 base pairs from the edge of nucleosomes and function as a DNA-length sensor that regulates nucleosome sliding by INO80. Disruption of Arp8 and Arp4 binding to DNA uncouples ATP hydrolysis from nucleosome mobilization by disengaging Arp5 from the acidic patch on histone H2A-H2B and the Ino80-ATPase domain from the Super-helical Location (SHL) -6 of nucleosomes. Our data suggest a functional interplay between INO80’s Arp8-Arp4-actin and Arp5 modules in sensing the DNA length separating nucleosomes and regulating nucleosome positioning.

Suggested Citation

  • Sandipan Brahma & Mzwanele Ngubo & Somnath Paul & Maheshi Udugama & Blaine Bartholomew, 2018. "The Arp8 and Arp4 module acts as a DNA sensor controlling INO80 chromatin remodeling," Nature Communications, Nature, vol. 9(1), pages 1-10, December.
    • Handle: RePEc:nat:natcom:v:9:y:2018:i:1:d:10.1038_s41467-018-05710-7
    DOI: 10.1038/s41467-018-05710-7
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    Cited by:

    1. Ashish Kumar Singh & Tamás Schauer & Lena Pfaller & Tobias Straub & Felix Mueller-Planitz, 2021. "The biogenesis and function of nucleosome arrays," Nature Communications, Nature, vol. 12(1), pages 1-15, December.
    2. Ziqing Yang & Shaomin Zou & Yijing Zhang & Jieping Zhang & Peng Zhang & Lishi Xiao & Yunling Xie & Manqi Meng & Junyan Feng & Liang Kang & Mong-Hong Lee & Lekun Fang, 2023. "ACTL6A protects gastric cancer cells against ferroptosis through induction of glutathione synthesis," Nature Communications, Nature, vol. 14(1), pages 1-18, December.

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