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Signaling by a bacterial phytochrome histidine kinase involves a conformational cascade reorganizing the dimeric photoreceptor

Author

Listed:
  • E. Sethe Burgie

    (Washington University in St. Louis
    Bayer Crop Sciences)

  • Katherine Basore

    (Washington University in St. Louis Center for Cellular Imaging)

  • Michael J. Rau

    (Washington University in St. Louis Center for Cellular Imaging
    Bayer Crop Sciences)

  • Brock Summers

    (Washington University in St. Louis Center for Cellular Imaging)

  • Alayna J. Mickles

    (Washington University in St. Louis)

  • Vadim Grigura

    (Washington University in St. Louis)

  • James A. J. Fitzpatrick

    (Washington University in St. Louis Center for Cellular Imaging
    F. Hoffmann-La Roche Ltd)

  • Richard D. Vierstra

    (Washington University in St. Louis)

Abstract

Phytochromes (Phys) are a divergent cohort of bili-proteins that detect light through reversible interconversion between dark-adapted Pr and photoactivated Pfr states. While our understandings of downstream events are emerging, it remains unclear how Phys translate light into an interpretable conformational signal. Here, we present models of both states for a dimeric Phy with histidine kinase (HK) activity from the proteobacterium Pseudomonas syringae, which were built from high-resolution cryo-EM maps (2.8–3.4-Å) of the photosensory module (PSM) and its following signaling (S) helix together with lower resolution maps for the downstream output region augmented by RoseTTAFold and AlphaFold structural predictions. The head-to-head models reveal the PSM and its photointerconversion mechanism with strong clarity, while the HK region is interpretable but relatively mobile. Pr/Pfr comparisons show that bilin phototransformation alters PSM architecture culminating in a scissoring motion of the paired S-helices linking the PSMs to the HK bidomains that ends in reorientation of the paired catalytic ATPase modules relative to the phosphoacceptor histidines. This action apparently primes autophosphorylation enroute to phosphotransfer to the cognate DNA-binding response regulator AlgB which drives quorum-sensing behavior through transient association with the photoreceptor. Collectively, these models illustrate how light absorption conformationally translates into accelerated signaling by Phy-type kinases.

Suggested Citation

  • E. Sethe Burgie & Katherine Basore & Michael J. Rau & Brock Summers & Alayna J. Mickles & Vadim Grigura & James A. J. Fitzpatrick & Richard D. Vierstra, 2024. "Signaling by a bacterial phytochrome histidine kinase involves a conformational cascade reorganizing the dimeric photoreceptor," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
  • Handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-50412-y
    DOI: 10.1038/s41467-024-50412-y
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    References listed on IDEAS

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    1. Jeremiah R. Wagner & Joseph S. Brunzelle & Katrina T. Forest & Richard D. Vierstra, 2005. "A light-sensing knot revealed by the structure of the chromophore-binding domain of phytochrome," Nature, Nature, vol. 438(7066), pages 325-331, November.
    2. Hua Li & E. Sethe Burgie & Zira T. K. Gannam & Huilin Li & Richard D. Vierstra, 2022. "Plant phytochrome B is an asymmetric dimer with unique signalling potential," Nature, Nature, vol. 604(7904), pages 127-133, April.
    3. Elina Multamäki & Rahul Nanekar & Dmitry Morozov & Topias Lievonen & David Golonka & Weixiao Yuan Wahlgren & Brigitte Stucki-Buchli & Jari Rossi & Vesa P. Hytönen & Sebastian Westenhoff & Janne A. Iha, 2021. "Comparative analysis of two paradigm bacteriophytochromes reveals opposite functionalities in two-component signaling," Nature Communications, Nature, vol. 12(1), pages 1-14, December.
    4. Weixiao Yuan Wahlgren & Elin Claesson & Iida Tuure & Sergio Trillo-Muyo & Szabolcs Bódizs & Janne A. Ihalainen & Heikki Takala & Sebastian Westenhoff, 2022. "Structural mechanism of signal transduction in a phytochrome histidine kinase," Nature Communications, Nature, vol. 13(1), pages 1-8, December.
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