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Linker-free PROTACs efficiently induce the degradation of oncoproteins

Author

Listed:
  • Jianchao Zhang

    (Southern University of Science and Technology)

  • Congli Chen

    (Chinese Academy of Sciences)

  • Xiao Chen

    (Southern University of Science and Technology)

  • Kefan Liao

    (Southern University of Science and Technology)

  • Fengming Li

    (Southern University of Science and Technology)

  • Xiaoxiao Song

    (Southern University of Science and Technology)

  • Chaowei Liu

    (Southern University of Science and Technology)

  • Ming-Yuan Su

    (Southern University of Science and Technology
    Southern University of Science and Technology
    Southern University of Science and Technology
    Southern University of Science and Technology)

  • Huiyong Sun

    (China Pharmaceutical University)

  • Tingjun Hou

    (Zhejiang University)

  • Chris Soon Heng Tan

    (Southern University of Science and Technology)

  • Lijing Fang

    (Chinese Academy of Sciences)

  • Hai Rao

    (Southern University of Science and Technology
    Southern University of Science and Technology
    Southern University of Science and Technology)

Abstract

Proteolysis-targeting chimeras (PROTACs) present a potentially effective strategy against various diseases via selective proteolysis. How to increase the efficacy of PROTACs remains challenging. Here, we explore the necessity of the linker, which has been deemed as an integral part of heterobifunctional PROTACs. Adopting single amino acid-based degradation signals, we find that the linker is not a required feature of the PROTACs. Notably, the linker-free PROTAC, Pro-BA, exhibits superior efficacy over its linker-bearing counterparts in degrading EML4-ALK and inhibiting lung cancer cell growth, as Pro-BA induces a stronger interaction between the target and the E3 ubiquitin ligase. Pro-BA is a water-soluble, orally administered degrader that significantly inhibits the tumor growth in a xenograft mouse model. The broad applicability of this linker-free PROTAC strategy is further validated through the development of BCR-ABL degrader. Our study introduces a design paradigm for PROTACs, potentially facilitating the advancement of more efficient therapeutic degraders.

Suggested Citation

  • Jianchao Zhang & Congli Chen & Xiao Chen & Kefan Liao & Fengming Li & Xiaoxiao Song & Chaowei Liu & Ming-Yuan Su & Huiyong Sun & Tingjun Hou & Chris Soon Heng Tan & Lijing Fang & Hai Rao, 2025. "Linker-free PROTACs efficiently induce the degradation of oncoproteins," Nature Communications, Nature, vol. 16(1), pages 1-15, December.
  • Handle: RePEc:nat:natcom:v:16:y:2025:i:1:d:10.1038_s41467-025-60107-7
    DOI: 10.1038/s41467-025-60107-7
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    References listed on IDEAS

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    1. Ryan P. Wurz & Huan Rui & Ken Dellamaggiore & Sudipa Ghimire-Rijal & Kaylee Choi & Kate Smither & Albert Amegadzie & Ning Chen & Xiaofen Li & Abhisek Banerjee & Qing Chen & Dane Mohl & Amit Vaish, 2023. "Affinity and cooperativity modulate ternary complex formation to drive targeted protein degradation," Nature Communications, Nature, vol. 14(1), pages 1-16, December.
    2. Yao Li & Yueling Zhao & Xiaojie Yan & Chen Ye & Sara Weirich & Bing Zhang & Xiaolu Wang & Lili Song & Chenhao Jiang & Albert Jeltsch & Cheng Dong & Wenyi Mi, 2022. "CRL2ZER1/ZYG11B recognizes small N-terminal residues for degradation," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
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