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The aptamer-based RNA-PROTAC.

Yan Xu1, Yi Yuan2, Ding-Qiang Fu3

  • 1Chengdu Institute of Organic Chemistry, Chinese Academy of Sciences, Chengdu, Sichuan 610041, PR China; Natural Products Research Center, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, Sichuan 610041, PR China; University of Chinese Academy of Sciences, Beijing 100049, PR China.

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|May 3, 2023
PubMed
Summary

This study introduces RNA-PROTACs, a novel aptamer-based system for targeted degradation of RNA-binding proteins (RBPs). This approach effectively degrades specific RBPs and multiple targets, offering new therapeutic potential for RBP-related diseases.

Keywords:
Aptamer-based RNA-PROTACHeterobifunctional moleculeRNA-binding proteinsTargeted degradation

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Area of Science:

  • Molecular Biology
  • Biochemistry
  • Drug Discovery

Background:

  • RNA-binding proteins (RBPs) are crucial in cellular processes, and their dysfunction is linked to various diseases.
  • RBPs have been historically challenging to target with conventional drugs, limiting therapeutic interventions.
  • Targeted protein degradation is an emerging therapeutic strategy for disease treatment.

Purpose of the Study:

  • To develop a novel platform for targeted degradation of RNA-binding proteins (RBPs).
  • To demonstrate the efficacy of the aptamer-based RNA-PROTAC system for degrading specific and multiple RBPs.
  • To establish RNA-PROTACs as a viable strategy for targeting previously undruggable RBPs.

Main Methods:

  • Development of an aptamer-based RNA-PROTAC system comprising an RNA scaffold and a heterobifunctional molecule.
  • Design of RNA scaffolds with specific RNA consensus binding elements (RCBEs) for target RBP recognition.
  • Utilizing a non-covalent small molecule to recruit E3 ubiquitin ligase to the RNA scaffold for protein degradation.
  • Demonstrating degradation of specific RBPs (LIN28A, RBFOX1) by modifying the RCBE.
  • Achieving simultaneous degradation of multiple target proteins by incorporating multiple functional RNA oligonucleotides.

Main Results:

  • Successful targeted degradation of specific RBPs, including LIN28A and RBFOX1, using the RNA-PROTAC system.
  • Demonstration of simultaneous degradation of multiple target proteins through multiplexed RNA scaffolds.
  • The RNA-PROTAC system effectively induces proximity-dependent ubiquitination and proteasome-mediated degradation of target RBPs.
  • The system's modular nature allows for easy adaptation to different RBP targets by altering the RCBE.

Conclusions:

  • Aptamer-based RNA-PROTACs offer a versatile and effective platform for targeted degradation of RBPs.
  • This technology overcomes the challenge of targeting previously undruggable RBPs, opening new therapeutic avenues.
  • The ability to degrade single or multiple RBPs simultaneously provides a powerful tool for disease intervention and research.