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Can molecular dynamics facilitate the design of protein–protein-interaction inhibitors?

The design of effective inhibitors of protein–protein interactions is challenging. In a new study, thermal fluctuation of protein structure was simulated to identify small-molecule candidates that inhibit protein–protein interactions. The application of this technique to other protein–protein interactions might facilitate the replacement of biologic agents with orally available small-molecule drugs.

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References

  1. Scott, D. E., Bayly, A. R., Abell, C. & Skidmore, J. Small molecules, big targets: drug discovery faces the protein-protein interaction challenge. Nat. Rev. Drug Discov. 15, 533–550 (2016).

    Article  CAS  Google Scholar 

  2. Santos, R. et al. A comprehensive map of molecular drug targets. Nat. Rev. Drug Discov. 16, 19–34 (2017).

    Article  CAS  Google Scholar 

  3. Lu, H. et al. Recent advances in the development of protein-protein interactions modulators: mechanisms and clinical trials. Signal Transduct. Target. Ther. 5, 213 (2020).

    Article  Google Scholar 

  4. Huang, D. et al. Identification of a binding site on soluble RANKL that can be targeted to inhibit soluble RANK-RANKL interactions and treat osteoporosis. Nat. Commun. 13, 5338 (2022).

    Article  CAS  Google Scholar 

  5. Philippe, G. J. B., Craik, D. J. & Henriques, S. T. Converting peptides into drugs targeting intracellular protein-protein interactions. Drug Discov. Today 26, 1521–1531 (2021).

    Article  CAS  Google Scholar 

  6. Aoki, K. et al. A TNF receptor loop peptide mimic blocks RANK ligand-induced signaling, bone resorption, and bone loss. J. Clin. Invest. 116, 1525–1534 (2006).

    Article  CAS  Google Scholar 

  7. Cheng, X. et al. Disabling of receptor activator of nuclear factor-κB (RANK) receptor complex by novel osteoprotegerin-like peptidomimetics restores bone loss in vivo. J. Biol. Chem. 279, 8269–8277 (2004).

    Article  CAS  Google Scholar 

  8. Bumbaca, B., Li, Z. & Shah, D. K. Pharmacokinetics of protein and peptide conjugates. Drug Metab. Pharmacokinet. 34, 42–54 (2019).

    Article  CAS  Google Scholar 

  9. Asano, T. et al. Soluble RANKL is physiologically dispensable but accelerates tumour metastasis to bone. Nat. Metab. 1, 868–875 (2019).

    Article  Google Scholar 

  10. Xiong, J. et al. Soluble RANKL contributes to osteoclast formation in adult mice but not ovariectomy-induced bone loss. Nat. Commun. 9, 2909 (2018).

    Article  Google Scholar 

Download references

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Correspondence to Hiroshi Suzuki.

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Honma, M., Suzuki, H. Can molecular dynamics facilitate the design of protein–protein-interaction inhibitors?. Nat Rev Rheumatol 19, 8–9 (2023). https://doi.org/10.1038/s41584-022-00877-2

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