SMTL ID : 9mqk.1

Inactive Kappa-Opioid Receptor with Nb6M, NabFab, and isoquinuclidine compound #020_E1

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-1-1-1-mer

Ligands

2 x 01: methyl (1S,3R,4S,6S,8M)-2-[(1-ethyl-1H-pyrazol-4-yl)methyl]-8-(3-hydroxyphenyl)-3,4-dimethyl-2-azabicyclo[2.2.2]oct-7-ene-6-carboxylate

01.1: 15 residues within 4Å: Chain A: Y.74, Q.123, V.126, D.146, Y.147, M.150, V.238, W.295, I.298, H.299, I.302, Y.320, I.324, G.327, Y.328 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.126, A:Y.147, A:W.295, A:I.298, A:I.324 Salt bridges: A:D.146 pi-Stacking: A:H.299 01.2: 12 residues within 4Å: Chain B: Q.123, Y.147, M.150, V.238, W.295, I.298, H.299, I.302, Y.320, I.324, G.327, Y.328 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:Q.123, B:Y.147, B:V.238, B:I.298 Hydrogen bonds: B:Y.320 Salt bridges: B:D.146

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vigneron, S.F. et al., Docking 14 million virtual isoquinuclidines against the mu and kappa opioid receptors reveals dual antagonists-inverse agonists with reduced withdrawal effects. Biorxiv (2025)

Release Date

2025-02-12

Peptides

Kappa-Opioid Receptor: AB
Nanobody 6M: C
NabFab Heavy Chain: D
NabFab Light Chain: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
E

D
H

E
L

Membrane

We predict this structure to be a membrane protein.
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Kappa-Opioid Receptor

Nanobody 6M

NabFab Heavy Chain

NabFab Light Chain

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