SMTL ID : 8efl.1

SR17018-bound mu-opioid receptor-Gi complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-1-1-1-mer

Ligands

2 x WH9: 5,6-dichloro-1-{1-[(4-chlorophenyl)methyl]piperidin-4-yl}-1,3-dihydro-2H-benzimidazol-2-one(Non-covalent)

WH9.1: 12 residues within 4Å: Chain A: Q.125, N.128, W.134, V.144, D.148, Y.149, M.152, C.218, I.297, H.298, V.301, Y.327 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Q.125, A:Y.149, A:I.297 Salt bridges: A:D.148 WH9.7: 12 residues within 4Å: Chain F: Q.125, N.128, W.134, V.144, D.148, Y.149, M.152, C.218, V.237, I.297, H.298, Y.327 5 PLIP interactions: 5 interactions with chain F Hydrophobic interactions: F:Y.149, F:V.237, F:I.297 Hydrogen bonds: F:Y.327 Salt bridges: F:D.148

10 x CLR: CHOLESTEROL(Non-covalent)

CLR.2: 8 residues within 4Å: Chain A: M.100, F.109, N.110, L.113, L.117, Y.150, K.186, W.193 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.109, A:F.109, A:L.113, A:L.117, A:Y.150, A:K.186, A:K.186, A:W.193 CLR.3: 6 residues within 4Å: Chain A: P.296, I.299, Y.300, I.303, F.314, S.318 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:P.296, A:Y.300, A:Y.300, A:I.303, A:F.314 CLR.4: 10 residues within 4Å: Chain A: F.157, I.199, P.202, M.206, W.229, L.233, C.236, F.240 Chain F: L.195 Ligands: CLR.11 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain F Hydrophobic interactions: A:F.157, A:I.199, A:I.199, A:P.202, A:W.229, A:L.233, A:F.240, F:L.195 CLR.5: 9 residues within 4Å: Chain A: W.227, Y.228, N.231, I.235 Chain F: V.164, Y.167, H.172, K.175 Ligands: CLR.8 7 PLIP interactions: 3 interactions with chain F, 4 interactions with chain A Hydrophobic interactions: F:V.164, F:V.164, F:Y.167, A:W.227, A:Y.228, A:N.231, A:I.235 CLR.6: 8 residues within 4Å: Chain A: Y.167, L.247, I.248, V.251, L.255 Chain F: I.239, L.306 Ligands: CLR.12 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain F Hydrophobic interactions: A:L.247, A:I.248, A:V.251, F:I.239, F:L.306 CLR.8: 9 residues within 4Å: Chain A: I.235, I.239, L.306 Chain F: Y.167, M.244, L.247, V.251, L.255 Ligands: CLR.5 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain F Hydrophobic interactions: A:I.235, A:I.239, A:I.239, A:L.306, F:L.247, F:V.251, F:V.251 CLR.9: 8 residues within 4Å: Chain F: M.100, I.106, F.109, N.110, Y.150, K.186, W.193, S.197 3 PLIP interactions: 3 interactions with chain F Hydrophobic interactions: F:I.106, F:F.109, F:F.109 CLR.10: 6 residues within 4Å: Chain F: P.296, I.299, Y.300, I.303, F.314, S.318 8 PLIP interactions: 8 interactions with chain F Hydrophobic interactions: F:P.296, F:P.296, F:I.299, F:Y.300, F:Y.300, F:I.303, F:I.303, F:F.314 CLR.11: 10 residues within 4Å: Chain F: L.195, I.199, P.202, M.206, W.229, L.232, L.233, C.236, F.240 Ligands: CLR.4 7 PLIP interactions: 7 interactions with chain F Hydrophobic interactions: F:L.195, F:I.199, F:I.199, F:P.202, F:L.232, F:L.233, F:F.240 CLR.12: 12 residues within 4Å: Chain A: V.164, Y.167, I.168, H.172, K.175, I.248 Chain F: W.227, Y.228, N.231, L.232, I.235 Ligands: CLR.6 10 PLIP interactions: 6 interactions with chain F, 4 interactions with chain A Hydrophobic interactions: F:W.227, F:W.227, F:Y.228, F:N.231, F:L.232, F:I.235, A:V.164, A:Y.167, A:I.168, A:I.248

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhuang, Y. et al., Molecular recognition of morphine and fentanyl by the human mu-opioid receptor. Cell (2022)

Release Date

2022-11-09

Peptides

Mu-type opioid receptor: AF
Guanine nucleotide-binding protein G(i) subunit alpha-1: BG
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1: C
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2: D
scFv16: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
R

F
M

B
A

G
F

C
B

D
C

E
E

Membrane

We predict this structure to be a membrane protein.
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Mu-type opioid receptor

Guanine nucleotide-binding protein G(i) subunit alpha-1

Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1

Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2

scFv16

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