› 7yit

X-ray diffraction
3.3Å resolution

Molecular mechanism of biased signaling at the kappa opioid receptor

Released:
DOI: 10.2210/pdb7yit/pdb
PDB entry 7yit coloured by chain, front view.
PDB entry 7yit coloured by chain, side view.
PDB entry 7yit coloured by chain, top view.
Source organisms:
Primary publication:
Molecular mechanism of biased signaling at the kappa opioid receptor.
El Daibani A, Paggi JM, Kim K, Laloudakis YD, Popov P, Bernhard SM, Krumm BE, Olsen RHJ, Diberto J, Carroll FI, Katritch V, Wünsch B, Dror RO, Che T
OpenAccess logo Nat Commun 14 1338 (2023)
PMID: 36906681

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-229871 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Kappa-type opioid receptor Chain: A
Molecule details ›
Chain: A
Length: 305 amino acids
Theoretical weight: 34.69 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P41145 (Residues: 54-358; Coverage: 80%)
Gene names: OPRK, OPRK1
Sequence domains: 7 transmembrane receptor (rhodopsin family)
Nanobody39 Chain: D
Molecule details ›
Chain: D
Length: 123 amino acids
Theoretical weight: 13.57 KDa
Source organism: Lama glama
Expression system: Escherichia coli
Soluble cytochrome b562 Chain: E
Molecule details ›
Chain: E
Length: 109 amino acids
Theoretical weight: 12.09 KDa
Source organism: Escherichia coli
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P0ABE7 (Residues: 23-127; Coverage: 99%)
Gene name: cybC
Sequence domains: Cytochrome b562

Ligands and Environments

1 bound ligand:
Ligand IVB 1 x IVB
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 23-ID-B
Unit cell:
a: 70.75Å b: 76.53Å c: 154.46Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.29 0.285 0.335
Expression systems:
  • Spodoptera frugiperda
  • Escherichia coli

Quick links

Citations

3 review citations

IUPHAR themed review: Opioid efficacy, bias, and selectivity.
Ramos-Gonzalez et al. (2023)
2 more

1 mention without citation

Reanalysis of a μ opioid receptor crystal structure reveals a covalent adduct with BU72.
Munro TA. (2023)