9B9Y

Structural mechanism of CB1R binding to peripheral and biased inverse agonists

Summary for 9B9Y

• Entry DOI: 10.2210/pdb9b9y/pdb
• EMDB information: 44392
• Descriptor: Cannabinoid receptor 1,Glycogen synthase, CNb36, N-[(2S,3S)-4-(4-chlorophenyl)-3-(3-cyanophenyl)butan-2-yl]-2-methyl-2-{[5-(trifluoromethyl)pyridin-2-yl]oxy}propanamide (3 entities in total)
• Functional Keywords: obesity, membrane protein, nanobody, signaling protein-immune system complex, signaling protein/immune system
• Biological source: Homo sapiens (human); More
• Total number of polymer chains: 2
• Total formula weight: 75305.57

Authors

Kumari, P.,Dvoracsko, S.,Enos, M.D.,Ramesh, K.,Lim, D.,Hassan, S.A.,Kunos, G.,Iyer, M.R.,Rosenbaum, D.M. (deposition date: 2024-04-03, release date: 2024-11-20, Last modification date: 2025-01-01)

Primary citation

Kumari, P.,Dvoracsko, S.,Enos, M.D.,Ramesh, K.,Lim, D.,Hassan, S.A.,Kunos, G.,Cinar, R.,Iyer, M.R.,Rosenbaum, D.M.
Structural mechanism of CB 1 R binding to peripheral and biased inverse agonists.
Nat Commun, 15:10694-10694, 2024

PubMed Abstract: The cannabinoid receptor 1 (CBR) regulates synaptic transmission in the central nervous system, but also has important roles in the peripheral organs controlling cellular metabolism. While earlier generations of brain penetrant CBR antagonists advanced to the clinic for their effective treatment of obesity, such molecules were ultimately shown to exhibit negative effects on central reward pathways that thwarted their further therapeutic development. The peripherally restricted CBR inverse agonists MRI-1867 and MRI-1891 represent a new generation of compounds that retain the metabolic benefits of CBR inhibitors while sparing the negative psychiatric effects. To understand the mechanism of binding and inhibition of CBR by peripherally restricted antagonists, we developed a nanobody/fusion protein strategy for high-resolution cryo-EM structure determination of the GPCR inactive state, and used this method to determine structures of CBR bound to either MRI-1867 or MRI-1891. These structures reveal how these compounds retain high affinity and specificity for CBR's hydrophobic orthosteric site despite incorporating polar functionalities that lead to peripheral restriction. Further, the structure of the MRI-1891 complex along with accompanying molecular dynamics simulations shows how differential engagement with transmembrane helices and the proximal N-terminus can propagate through the receptor to contribute to biased inhibition of β-arrestin signaling.

PubMed: 39695122
DOI: 10.1038/s41467-024-54206-0

Experimental method

ELECTRON MICROSCOPY (3.5 Å)