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Hori T, Okuno T, Hirata K, Yamashita K, Kawano Y, Yamamoto M, Hato M, Nakamura M, Shimizu T, Yokomizo T, Miyano M, Yokoyama S. Na +-mimicking ligands stabilize the inactive state of leukotriene B 4 receptor BLT1. Nat Chem Biol 2018; 14:262-269. [PMID: 29309055 DOI: 10.1038/nchembio.2547] [Citation(s) in RCA: 62] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2017] [Accepted: 11/14/2017] [Indexed: 01/07/2023]
Abstract
Most G-protein-coupled receptors (GPCRs) are stabilized in common in the inactive state by the formation of the sodium ion-centered water cluster with the conserved Asp2.50 inside the seven-transmembrane domain. We determined the crystal structure of the leukotriene B4 (LTB4) receptor BLT1 bound with BIIL260, a chemical bearing a benzamidine moiety. Surprisingly, the amidine group occupies the sodium ion and water locations, interacts with D662.50, and mimics the entire sodium ion-centered water cluster. Thus, BLT1 is fixed in the inactive state, and the transmembrane helices cannot change their conformations to form the active state. Moreover, the benzamidine molecule alone serves as a negative allosteric modulator for BLT1. As the residues involved in the benzamidine binding are widely conserved among GPCRs, the unprecedented inverse-agonist mechanism by the benzamidine moiety could be adapted to other GPCRs. Consequently, the present structure will enable the rational development of inverse agonists specific for each GPCR.
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Affiliation(s)
- Tetsuya Hori
- RIKEN Structural Biology Laboratory, Tsurumi-ku, Yokohama, Kanagawa, Japan.,RIKEN SPring-8 Center, Sayo, Hyogo, Japan
| | - Toshiaki Okuno
- Department of Biochemistry, Juntendo University School of Medicine, Bunkyo-ku, Tokyo, Japan
| | - Kunio Hirata
- RIKEN SPring-8 Center, Sayo, Hyogo, Japan.,Japan Science and Technology Agency, Precursory Research for Embryonic Science and Technology (PRESTO), Kawaguchi, Saitama, Japan
| | | | | | | | - Masakatsu Hato
- Division of Structural and Synthetic Biology, RIKEN Center for Life Science Technologies, Tsurumi-ku, Yokohama, Japan
| | - Motonao Nakamura
- Department of Biochemistry and Molecular Biology, Faculty of Medicine, The University of Tokyo, Bunkyo-ku, Tokyo, Japan.,Department of Life Science, Faculty of Science, Okayama University of Science, Kita-ku, Okayama, Japan
| | - Takao Shimizu
- Department of Biochemistry and Molecular Biology, Faculty of Medicine, The University of Tokyo, Bunkyo-ku, Tokyo, Japan.,Department of Lipid Signaling, National Center for Global Health and Medicine, Shinjuku, Tokyo, Japan
| | - Takehiko Yokomizo
- Department of Biochemistry, Juntendo University School of Medicine, Bunkyo-ku, Tokyo, Japan
| | - Masashi Miyano
- RIKEN SPring-8 Center, Sayo, Hyogo, Japan.,Department of Chemistry and Biological Science, College of Science and Engineering, Aoyama Gakuin University, Chuo-ku, Sagamihara, Kanagawa, Japan
| | - Shigeyuki Yokoyama
- RIKEN Structural Biology Laboratory, Tsurumi-ku, Yokohama, Kanagawa, Japan
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