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Exploring the repeat protein universe through computational protein design

Author

Listed:
  • TJ Brunette

    (University of Washington
    Institute for Protein Design, University of Washington)

  • Fabio Parmeggiani

    (University of Washington
    Institute for Protein Design, University of Washington)

  • Po-Ssu Huang

    (University of Washington
    Institute for Protein Design, University of Washington)

  • Gira Bhabha

    (UCSF)

  • Damian C. Ekiert

    (UCSF)

  • Susan E. Tsutakawa

    (Molecular Biophysics & Integrated Bioimaging, Lawrence Berkeley National Laboratory)

  • Greg L. Hura

    (Molecular Biophysics & Integrated Bioimaging, Lawrence Berkeley National Laboratory
    University of California)

  • John A. Tainer

    (Molecular Biophysics & Integrated Bioimaging, Lawrence Berkeley National Laboratory
    The University of Texas M. D. Anderson Cancer Center)

  • David Baker

    (University of Washington
    Institute for Protein Design, University of Washington
    Howard Hughes Medical Institute, University of Washington)

Abstract

In this study, 83 proteins containing helix–loop–helix–loop repeats were designed—with sequences unrelated to known repeat proteins—and experimentally characterized; 43 solution X-ray scattering spectra and 15 structures of the designed proteins show that these non-natural repeat proteins have a broad range of curvatures and that their overall structures are in close agreement with design models.

Suggested Citation

  • TJ Brunette & Fabio Parmeggiani & Po-Ssu Huang & Gira Bhabha & Damian C. Ekiert & Susan E. Tsutakawa & Greg L. Hura & John A. Tainer & David Baker, 2015. "Exploring the repeat protein universe through computational protein design," Nature, Nature, vol. 528(7583), pages 580-584, December.
    • Handle: RePEc:nat:nature:v:528:y:2015:i:7583:d:10.1038_nature16162
    DOI: 10.1038/nature16162
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    Citations

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    Cited by:

    1. Thomas W. Linsky & Kyle Noble & Autumn R. Tobin & Rachel Crow & Lauren Carter & Jeffrey L. Urbauer & David Baker & Eva-Maria Strauch, 2022. "Sampling of structure and sequence space of small protein folds," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
    2. Fatima A. Davila-Hernandez & Biao Jin & Harley Pyles & Shuai Zhang & Zheming Wang & Timothy F. Huddy & Asim K. Bera & Alex Kang & Chun-Long Chen & James J. Yoreo & David Baker, 2023. "Directing polymorph specific calcium carbonate formation with de novo protein templates," Nature Communications, Nature, vol. 14(1), pages 1-11, December.
    3. Fabian Sesterhenn & Che Yang & Jaume Bonet & Johannes T. Cramer & Xiaolin Wen & Yimeng Wang & Chi I. Chiang & Luciano Andres Abriata & Iga Kucharska & Giacomo Castoro & Sabrina S. Vollers & Marie Gall, 2020. "De novo protein design enables the precise induction of RSV-neutralizing antibodies," Post-Print hal-02677103, HAL.

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