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Near-atomic resolution visualization of human transcription promoter opening

Author

Listed:
  • Yuan He

    (Lawrence Berkeley National Laboratory
    Northwestern University)

  • Chunli Yan

    (Center for Diagnostics and Therapeutics, Georgia State University)

  • Jie Fang

    (Howard Hughes Medical Institute, University of California)

  • Carla Inouye

    (Li Ka Shing Center for Biomedical and Health Sciences, University of California)

  • Robert Tjian

    (Howard Hughes Medical Institute, University of California
    Li Ka Shing Center for Biomedical and Health Sciences, University of California
    University of California)

  • Ivaylo Ivanov

    (Center for Diagnostics and Therapeutics, Georgia State University)

  • Eva Nogales

    (Lawrence Berkeley National Laboratory
    Howard Hughes Medical Institute, University of California
    University of California)

Abstract

In eukaryotic transcription initiation, a large multi-subunit pre-initiation complex (PIC) that assembles at the core promoter is required for the opening of the duplex DNA and identification of the start site for transcription by RNA polymerase II. Here we use cryo-electron microscropy (cryo-EM) to determine near-atomic resolution structures of the human PIC in a closed state (engaged with duplex DNA), an open state (engaged with a transcription bubble), and an initially transcribing complex (containing six base pairs of DNA–RNA hybrid). Our studies provide structures for previously uncharacterized components of the PIC, such as TFIIE and TFIIH, and segments of TFIIA, TFIIB and TFIIF. Comparison of the different structures reveals the sequential conformational changes that accompany the transition from each state to the next throughout the transcription initiation process. This analysis illustrates the key role of TFIIB in transcription bubble stabilization and provides strong structural support for a translocase activity of XPB.

Suggested Citation

  • Yuan He & Chunli Yan & Jie Fang & Carla Inouye & Robert Tjian & Ivaylo Ivanov & Eva Nogales, 2016. "Near-atomic resolution visualization of human transcription promoter opening," Nature, Nature, vol. 533(7603), pages 359-365, May.
    • Handle: RePEc:nat:nature:v:533:y:2016:i:7603:d:10.1038_nature17970
    DOI: 10.1038/nature17970
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    Cited by:

    1. Jina Yu & Chunli Yan & Tanmoy Paul & Lucas Brewer & Susan E. Tsutakawa & Chi-Lin Tsai & Samir M. Hamdan & John A. Tainer & Ivaylo Ivanov, 2024. "Molecular architecture and functional dynamics of the pre-incision complex in nucleotide excision repair," Nature Communications, Nature, vol. 15(1), pages 1-15, December.
    2. Hong-Wei Zhang & Kun Huang & Zhan-Xi Gu & Xiao-Xian Wu & Jia-Wei Wang & Yu Zhang, 2023. "A cryo-EM structure of KTF1-bound polymerase V transcription elongation complex," Nature Communications, Nature, vol. 14(1), pages 1-11, December.
    3. Simona Pilotto & Michal Sýkora & Gwenny Cackett & Christopher Dulson & Finn Werner, 2024. "Structure of the recombinant RNA polymerase from African Swine Fever Virus," Nature Communications, Nature, vol. 15(1), pages 1-15, December.
    4. Benjamin M. Spector & Mrutyunjaya Parida & Ming Li & Christopher B. Ball & Jeffery L. Meier & Donal S. Luse & David H. Price, 2022. "Differences in RNA polymerase II complexes and their interactions with surrounding chromatin on human and cytomegalovirus genomes," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
    5. Jina Yu & Chunli Yan & Thomas Dodd & Chi-Lin Tsai & John A. Tainer & Susan E. Tsutakawa & Ivaylo Ivanov, 2023. "Dynamic conformational switching underlies TFIIH function in transcription and DNA repair and impacts genetic diseases," Nature Communications, Nature, vol. 14(1), pages 1-15, December.
    6. Tatsuo Yanagisawa & Yuko Murayama & Haruhiko Ehara & Mie Goto & Mari Aoki & Shun-ichi Sekine, 2024. "Structural basis of eukaryotic transcription termination by the Rat1 exonuclease complex," Nature Communications, Nature, vol. 15(1), pages 1-12, December.

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