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Structure and regulation of full-length human leucine-rich repeat kinase 1

Author

Listed:
  • Riley D. Metcalfe

    (Center for Structural Biology, Center for Cancer Research, National Cancer Institute)

  • Juliana A. Martinez Fiesco

    (Center for Structural Biology, Center for Cancer Research, National Cancer Institute)

  • Luis Bonet-Ponce

    (Cell Biology and Gene Expression Section, Laboratory of Neurogenetics, National Institute on Aging, National Institutes of Health)

  • Jillian H. Kluss

    (Cell Biology and Gene Expression Section, Laboratory of Neurogenetics, National Institute on Aging, National Institutes of Health)

  • Mark R. Cookson

    (Cell Biology and Gene Expression Section, Laboratory of Neurogenetics, National Institute on Aging, National Institutes of Health)

  • Ping Zhang

    (Center for Structural Biology, Center for Cancer Research, National Cancer Institute)

Abstract

The human leucine-rich repeat kinases (LRRKs), LRRK1 and LRRK2 are large and unusually complex multi-domain kinases, which regulate fundamental cellular processes and have been implicated in human disease. Structures of LRRK2 have recently been determined, but the structure and molecular mechanisms regulating the activity of the LRRK1 as well as differences in the regulation of LRRK1 and LRRK2 remain unclear. Here, we report a cryo-EM structure of the LRRK1 monomer and a lower-resolution cryo-EM map of the LRRK1 dimer. The monomer structure, in which the kinase is in an inactive conformation, reveals key interdomain interfaces that control kinase activity as we validate experimentally. Both the LRRK1 monomer and dimer are structurally distinct compared to LRRK2. Overall, our results provide structural insights into the activation of the human LRRKs, which advance our understanding of their physiological and pathological roles.

Suggested Citation

  • Riley D. Metcalfe & Juliana A. Martinez Fiesco & Luis Bonet-Ponce & Jillian H. Kluss & Mark R. Cookson & Ping Zhang, 2023. "Structure and regulation of full-length human leucine-rich repeat kinase 1," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
  • Handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-023-40532-2
    DOI: 10.1038/s41467-023-40532-2
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    References listed on IDEAS

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    1. Hiroshi Hanafusa & Kouki Ishikawa & Shin Kedashiro & Tsukasa Saigo & Shun-ichiro Iemura & Tohru Natsume & Masayuki Komada & Hiroshi Shibuya & Atsuki Nara & Kunihiro Matsumoto, 2011. "Leucine-rich repeat kinase LRRK1 regulates endosomal trafficking of the EGF receptor," Nature Communications, Nature, vol. 2(1), pages 1-12, September.
    2. Tristan Bepler & Kotaro Kelley & Alex J. Noble & Bonnie Berger, 2020. "Topaz-Denoise: general deep denoising models for cryoEM and cryoET," Nature Communications, Nature, vol. 11(1), pages 1-12, December.
    3. C. K. Deniston & J. Salogiannis & S. Mathea & D. M. Snead & I. Lahiri & M. Matyszewski & O. Donosa & R. Watanabe & J. Böhning & A. K. Shiau & S. Knapp & E. Villa & S. L. Reck-Peterson & A. E. Leschzin, 2020. "Structure of LRRK2 in Parkinson’s disease and model for microtubule interaction," Nature, Nature, vol. 588(7837), pages 344-349, December.
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