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Structural mapping of Nav1.7 antagonists

Author

Listed:
  • Qiurong Wu

    (School of Life Sciences, Tsinghua University)

  • Jian Huang

    (Princeton University)

  • Xiao Fan

    (Princeton University)

  • Kan Wang

    (China-Japan Friendship Hospital)

  • Xueqin Jin

    (School of Life Sciences, Tsinghua University)

  • Gaoxingyu Huang

    (School of Life Sciences, Westlake University
    Westlake Institute for Advanced Study)

  • Jiaao Li

    (School of Life Sciences, Tsinghua University)

  • Xiaojing Pan

    (School of Life Sciences, Tsinghua University)

  • Nieng Yan

    (School of Life Sciences, Tsinghua University
    Princeton University
    Guangming District)

Abstract

Voltage-gated sodium (Nav) channels are targeted by a number of widely used and investigational drugs for the treatment of epilepsy, arrhythmia, pain, and other disorders. Despite recent advances in structural elucidation of Nav channels, the binding mode of most Nav-targeting drugs remains unknown. Here we report high-resolution cryo-EM structures of human Nav1.7 treated with drugs and lead compounds with representative chemical backbones at resolutions of 2.6-3.2 Å. A binding site beneath the intracellular gate (site BIG) accommodates carbamazepine, bupivacaine, and lacosamide. Unexpectedly, a second molecule of lacosamide plugs into the selectivity filter from the central cavity. Fenestrations are popular sites for various state-dependent drugs. We show that vinpocetine, a synthetic derivative of a vinca alkaloid, and hardwickiic acid, a natural product with antinociceptive effect, bind to the III-IV fenestration, while vixotrigine, an analgesic candidate, penetrates the IV-I fenestration of the pore domain. Our results permit building a 3D structural map for known drug-binding sites on Nav channels summarized from the present and previous structures.

Suggested Citation

  • Qiurong Wu & Jian Huang & Xiao Fan & Kan Wang & Xueqin Jin & Gaoxingyu Huang & Jiaao Li & Xiaojing Pan & Nieng Yan, 2023. "Structural mapping of Nav1.7 antagonists," Nature Communications, Nature, vol. 14(1), pages 1-10, December.
    • Handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-023-38942-3
    DOI: 10.1038/s41467-023-38942-3
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    References listed on IDEAS

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    1. Xiaojing Li & Feng Xu & Hao Xu & Shuli Zhang & Yiwei Gao & Hongwei Zhang & Yanli Dong & Yanchun Zheng & Bei Yang & Jianyuan Sun & Xuejun Cai Zhang & Yan Zhao & Daohua Jiang, 2022. "Structural basis for modulation of human NaV1.3 by clinical drug and selective antagonist," Nature Communications, Nature, vol. 13(1), pages 1-10, December.
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    3. Niraj S. Bende & Sławomir Dziemborowicz & Mehdi Mobli & Volker Herzig & John Gilchrist & Jordan Wagner & Graham M. Nicholson & Glenn F. King & Frank Bosmans, 2014. "A distinct sodium channel voltage-sensor locus determines insect selectivity of the spider toxin Dc1a," Nature Communications, Nature, vol. 5(1), pages 1-10, September.
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    1. Jian Huang & Xiao Fan & Xueqin Jin & Sooyeon Jo & Hanxiong Bear Zhang & Akie Fujita & Bruce P. Bean & Nieng Yan, 2023. "Cannabidiol inhibits Nav channels through two distinct binding sites," Nature Communications, Nature, vol. 14(1), pages 1-9, December.

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