SMTL ID : 6vi4.1

Nanobody-Enabled Monitoring of Kappa Opioid Receptor States

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.30 Å

Oligo State

hetero-2-2-mer

Ligands

2 x JDC: (3R)-7-hydroxy-N-{(2S)-1-[(3R,4R)-4-(3-hydroxyphenyl)-3,4-dimethylpiperidin-1-yl]-3-methylbutan-2-yl}-1,2,3,4-tetrahydroisoquinoline-3-carboxamide(Non-covalent)

JDC.1: 17 residues within 4Å: Chain A: V.57, T.60, Q.64, V.67, W.73, V.83, D.87, Y.88, M.91, C.159, K.176, V.179, H.240, I.243, I.265, G.268, Y.269 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:V.57, A:Q.64, A:W.73, A:V.83, A:D.87, A:I.243, A:Y.269 Hydrogen bonds: A:D.87 Salt bridges: A:D.87 JDC.3: 13 residues within 4Å: Chain C: T.60, Q.64, V.67, W.73, D.87, M.91, C.159, K.176, V.179, W.236, H.240, I.243, Y.269 10 PLIP interactions: 10 interactions with chain C Hydrophobic interactions: C:Q.64, C:W.73, C:W.73, C:D.87, C:W.236, C:I.243, C:I.243, C:Y.269 Hydrogen bonds: C:D.87 Salt bridges: C:D.87

1 x CLR: CHOLESTEROL(Non-covalent)

CLR.2: 7 residues within 4Å: Chain A: F.96, V.103, Y.106, I.107, H.111, P.187, I.190 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:F.96, A:V.103, A:I.107, A:P.187, A:I.190, A:I.190 Hydrogen bonds: A:H.111

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Che, T. et al., Nanobody-enabled monitoring of kappa opioid receptor states. Nat Commun (2020)

Release Date

2020-03-18

Peptides

Kappa opioid receptor: AC
Nanobody 6: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

C
A

B
C

D
D

Membrane

We predict this structure to be a membrane protein.
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Kappa opioid receptor

Nanobody 6

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