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The AUTOTAC chemical biology platform for targeted protein degradation via the autophagy-lysosome system

Author

Listed:
  • Chang Hoon Ji

    (Seoul National University
    AUTOTAC Bio Inc.)

  • Hee Yeon Kim

    (Seoul National University
    AUTOTAC Bio Inc.)

  • Min Ju Lee

    (Seoul National University
    AUTOTAC Bio Inc.)

  • Ah Jung Heo

    (Seoul National University
    AUTOTAC Bio Inc.)

  • Daniel Youngjae Park

    (Seoul National University)

  • Sungsu Lim

    (Korea Institute of Science and Technology (KIST))

  • Seulgi Shin

    (Korea Institute of Science and Technology (KIST)
    University of Science and Technology (UST))

  • Srinivasrao Ganipisetti

    (Brown Cancer Center, University of Louisville)

  • Woo Seung Yang

    (Korea Institute of Science and Technology (KIST))

  • Chang An Jung

    (AUTOTAC Bio Inc.)

  • Kun Young Kim

    (AUTOTAC Bio Inc.)

  • Eun Hye Jeong

    (AUTOTAC Bio Inc.)

  • Sun Ho Park

    (AUTOTAC Bio Inc.)

  • Su Kim

    (Seoul National University)

  • Su Jin Lee

    (Seoul National University)

  • Jeong Eun Na

    (AUTOTAC Bio Inc.)

  • Ji In Kang

    (Korea Research Institute of Bioscience and Biotechnology, Ochang)

  • Hyung Min Chi

    (Pohang University of Science and Technology)

  • Hyun Tae Kim

    (AUTOTAC Bio Inc.)

  • Yun Kyung Kim

    (Korea Institute of Science and Technology (KIST)
    University of Science and Technology (UST))

  • Bo Yeon Kim

    (Korea Research Institute of Bioscience and Biotechnology, Ochang
    University of Science and Technology (UST))

  • Yong Tae Kwon

    (Seoul National University
    AUTOTAC Bio Inc.
    Seoul National University)

Abstract

Targeted protein degradation allows targeting undruggable proteins for therapeutic applications as well as eliminating proteins of interest for research purposes. While several degraders that harness the proteasome or the lysosome have been developed, a technology that simultaneously degrades targets and accelerates cellular autophagic flux is still missing. In this study, we develop a general chemical tool and platform technology termed AUTOphagy-TArgeting Chimera (AUTOTAC), which employs bifunctional molecules composed of target-binding ligands linked to autophagy-targeting ligands. AUTOTACs bind the ZZ domain of the otherwise dormant autophagy receptor p62/Sequestosome-1/SQSTM1, which is activated into oligomeric bodies in complex with targets for their sequestration and degradation. We use AUTOTACs to degrade various oncoproteins and degradation-resistant aggregates in neurodegeneration at nanomolar DC50 values in vitro and in vivo. AUTOTAC provides a platform for selective proteolysis in basic research and drug development.

Suggested Citation

  • Chang Hoon Ji & Hee Yeon Kim & Min Ju Lee & Ah Jung Heo & Daniel Youngjae Park & Sungsu Lim & Seulgi Shin & Srinivasrao Ganipisetti & Woo Seung Yang & Chang An Jung & Kun Young Kim & Eun Hye Jeong & S, 2022. "The AUTOTAC chemical biology platform for targeted protein degradation via the autophagy-lysosome system," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
    • Handle: RePEc:nat:natcom:v:13:y:2022:i:1:d:10.1038_s41467-022-28520-4
    DOI: 10.1038/s41467-022-28520-4
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    References listed on IDEAS

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    1. Shoko Hashimoto & Yukio Matsuba & Naoko Kamano & Naomi Mihira & Naruhiko Sahara & Jiro Takano & Shin-ichi Muramatsu & Takaomi C. Saido & Takashi Saito, 2019. "Tau binding protein CAPON induces tau aggregation and neurodegeneration," Nature Communications, Nature, vol. 10(1), pages 1-16, December.
    2. Zhaoyang Li & Cen Wang & Ziying Wang & Chenggang Zhu & Jie Li & Tian Sha & Lixiang Ma & Chao Gao & Yi Yang & Yimin Sun & Jian Wang & Xiaoli Sun & Chenqi Lu & Marian Difiglia & Yanai Mei & Chen Ding & , 2019. "Allele-selective lowering of mutant HTT protein by HTT–LC3 linker compounds," Nature, Nature, vol. 575(7781), pages 203-209, November.
    3. Hyunjoo Cha-Molstad & Ji Eun Yu & Zhiwei Feng & Su Hyun Lee & Jung Gi Kim & Peng Yang & Bitnara Han & Ki Woon Sung & Young Dong Yoo & Joonsung Hwang & Terry McGuire & Sang Mi Shim & Hyun Dong Song & S, 2017. "p62/SQSTM1/Sequestosome-1 is an N-recognin of the N-end rule pathway which modulates autophagosome biogenesis," Nature Communications, Nature, vol. 8(1), pages 1-17, December.
    4. Steven M. Banik & Kayvon Pedram & Simon Wisnovsky & Green Ahn & Nicholas M. Riley & Carolyn R. Bertozzi, 2020. "Lysosome-targeting chimaeras for degradation of extracellular proteins," Nature, Nature, vol. 584(7820), pages 291-297, August.
    5. Tiffany A. Thibaudeau & Raymond T. Anderson & David M. Smith, 2018. "A common mechanism of proteasome impairment by neurodegenerative disease-associated oligomers," Nature Communications, Nature, vol. 9(1), pages 1-14, December.
    6. Shoko Hashimoto & Yukio Matsuba & Naoko Kamano & Naomi Mihira & Naruhiko Sahara & Jiro Takano & Shin-ichi Muramatsu & Takaomi C. Saido & Takashi Saito, 2019. "Author Correction: Tau binding protein CAPON induces tau aggregation and neurodegeneration," Nature Communications, Nature, vol. 10(1), pages 1-1, December.
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