8EF5

Fentanyl-bound mu-opioid receptor-Gi complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Molecular recognition of morphine and fentanyl by the human mu-opioid receptor.

Zhuang, Y.Wang, Y.He, B.He, X.Zhou, X.E.Guo, S.Rao, Q.Yang, J.Liu, J.Zhou, Q.Wang, X.Liu, M.Liu, W.Jiang, X.Yang, D.Jiang, H.Shen, J.Melcher, K.Chen, H.Jiang, Y.Cheng, X.Wang, M.W.Xie, X.Xu, H.E.

(2022) Cell 185: 4361-4375.e19

  • DOI: https://doi.org/10.1016/j.cell.2022.09.041
  • Primary Citation of Related Structures:  
    8EF5, 8EF6, 8EFB, 8EFL, 8EFO, 8EFQ

  • PubMed Abstract: 

    Morphine and fentanyl are among the most used opioid drugs that confer analgesia and unwanted side effects through both G protein and arrestin signaling pathways of μ-opioid receptor (μOR). Here, we report structures of the human μOR-G protein complexes bound to morphine and fentanyl, which uncover key differences in how they bind the receptor. We also report structures of μOR bound to TRV130, PZM21, and SR17018, which reveal preferential interactions of these agonists with TM3 side of the ligand-binding pocket rather than TM6/7 side. In contrast, morphine and fentanyl form dual interactions with both TM3 and TM6/7 regions. Mutations at the TM6/7 interface abolish arrestin recruitment of μOR promoted by morphine and fentanyl. Ligands designed to reduce TM6/7 interactions display preferential G protein signaling. Our results provide crucial insights into fentanyl recognition and signaling of μOR, which may facilitate rational design of next-generation analgesics.


  • Organizational Affiliation

    The CAS Key Laboratory of Receptor Research, Center for Structure and Function of Drug Targets, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai 201203, China. Electronic address: zhuangyouwen@simm.ac.cn.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Mu-type opioid receptorA [auth R],
F [auth M]
367Homo sapiensMutation(s): 0 
Gene Names: OPRM1MOR1
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P35372 (Homo sapiens)
Explore P35372 
Go to UniProtKB:  P35372
PHAROS:  P35372
GTEx:  ENSG00000112038 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP35372
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(i) subunit alpha-1B [auth A],
G [auth F]
354Homo sapiensMutation(s): 0 
Gene Names: GNAI1
EC: 3.6.5
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P63096 (Homo sapiens)
Explore P63096 
Go to UniProtKB:  P63096
PHAROS:  P63096
GTEx:  ENSG00000127955 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP63096
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1C [auth B]353Rattus norvegicusMutation(s): 0 
Gene Names: Gnb1
UniProt
Find proteins for P54311 (Rattus norvegicus)
Explore P54311 
Go to UniProtKB:  P54311
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UniProt GroupP54311
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2D [auth C]68Bos taurusMutation(s): 0 
Gene Names: GNG2
Membrane Entity: Yes 
UniProt
Find proteins for P63212 (Bos taurus)
Explore P63212 
Go to UniProtKB:  P63212
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UniProt GroupP63212
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
scFv16248synthetic constructMutation(s): 0 
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
CLR
Query on CLR

Download Ideal Coordinates CCD File 
I [auth R]
J [auth R]
K [auth R]
L [auth R]
M [auth R]
I [auth R],
J [auth R],
K [auth R],
L [auth R],
M [auth R],
O [auth M],
P [auth M],
Q [auth M],
R [auth M],
S [auth M]
CHOLESTEROL
C27 H46 O
HVYWMOMLDIMFJA-DPAQBDIFSA-N
7V7 (Subject of Investigation/LOI)
Query on 7V7

Download Ideal Coordinates CCD File 
H [auth R],
N [auth M]
N-phenyl-N-[1-(2-phenylethyl)piperidin-4-yl]propanamide
C22 H28 N2 O
PJMPHNIQZUBGLI-UHFFFAOYSA-N
Binding Affinity Annotations 
IDSourceBinding Affinity
7V7 BindingDB:  8EF5 Ki: min: 0.39, max: 570 (nM) from 19 assay(s)
IC50: min: 1.1, max: 3400 (nM) from 13 assay(s)
EC50: min: 0.51, max: 53 (nM) from 5 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Ministry of Science and Technology (MoST, China)China2018YFA0507002
Chinese Academy of SciencesChinaXDB08020303
Chinese Academy of SciencesChinaE1G707R078

Revision History  (Full details and data files)

  • Version 1.0: 2022-11-09
    Type: Initial release
  • Version 1.1: 2022-11-30
    Changes: Database references
  • Version 1.2: 2024-11-20
    Changes: Data collection, Structure summary