7YIT image
Deposition Date 2022-07-18
Release Date 2023-04-12
Last Version Date 2024-11-13
Entry Detail
PDB ID:
7YIT
Title:
Molecular mechanism of biased signaling at the kappa opioid receptor
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Lama glama (Taxon ID: 9844)
Escherichia coli (Taxon ID: 562)
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.30 Å
R-Value Free:
0.33
R-Value Work:
0.28
R-Value Observed:
0.28
Space Group:
P 2 21 21
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Kappa-type opioid receptor
Gene (Uniprot):OPRK1
Mutagens:I135L,S324C
Chain IDs:A
Chain Length:305
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Nanobody39
Chain IDs:B (auth: D)
Chain Length:123
Number of Molecules:1
Biological Source:Lama glama
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Soluble cytochrome b562
Gene (Uniprot):cybC
Mutagens:M1007W,V1084E,H1102I
Chain IDs:C (auth: E)
Chain Length:109
Number of Molecules:1
Biological Source:Escherichia coli
Ligand Molecules
Primary Citation
Molecular mechanism of biased signaling at the kappa opioid receptor.
Nat Commun 14 1338 1338 (2023)
PMID: 36906681 DOI: 10.1038/s41467-023-37041-7

Abstact

The κ-opioid receptor (KOR) has emerged as an attractive drug target for pain management without addiction, and biased signaling through particular pathways of KOR may be key to maintaining this benefit while minimizing side-effect liabilities. As for most G protein-coupled receptors (GPCRs), however, the molecular mechanisms of ligand-specific signaling at KOR have remained unclear. To better understand the molecular determinants of KOR signaling bias, we apply structure determination, atomic-level molecular dynamics (MD) simulations, and functional assays. We determine a crystal structure of KOR bound to the G protein-biased agonist nalfurafine, the first approved KOR-targeting drug. We also identify an arrestin-biased KOR agonist, WMS-X600. Using MD simulations of KOR bound to nalfurafine, WMS-X600, and a balanced agonist U50,488, we identify three active-state receptor conformations, including one that appears to favor arrestin signaling over G protein signaling and another that appears to favor G protein signaling over arrestin signaling. These results, combined with mutagenesis validation, provide a molecular explanation of how agonists achieve biased signaling at KOR.

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Protein

Chemical

Disease

Primary Citation of related structures