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 7W0O | pdb_00007w0o

Cryo-EM structure of a monomeric GPCR-Gi complex with peptide


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.78 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 7W0O

This is version 1.1 of the entry. See complete history. 

Literature

Structural insight into apelin receptor-G protein stoichiometry.

Yue, Y., Liu, L., Wu, L.J., Wu, Y., Wang, L., Li, F., Liu, J., Han, G.W., Chen, B., Lin, X., Brouillette, R.L., Breault, E., Longpre, J.M., Shi, S., Lei, H., Sarret, P., Stevens, R.C., Hanson, M.A., Xu, F.

(2022) Nat Struct Mol Biol 29: 688-697

  • DOI: https://doi.org/10.1038/s41594-022-00797-5
  • Primary Citation Related Structures: 
    7SUS, 7W0L, 7W0M, 7W0N, 7W0O, 7W0P

  • PubMed Abstract: 

    The technique of cryogenic-electron microscopy (cryo-EM) has revolutionized the field of membrane protein structure and function with a focus on the dominantly observed molecular species. This report describes the structural characterization of a fully active human apelin receptor (APJR) complexed with heterotrimeric G protein observed in both 2:1 and 1:1 stoichiometric ratios. We use cryo-EM single-particle analysis to determine the structural details of both species from the same sample preparation. Protein preparations, in the presence of the endogenous peptide ligand ELA or a synthetic small molecule, both demonstrate these mixed stoichiometric states. Structural differences in G protein engagement between dimeric and monomeric APJR suggest a role for the stoichiometry of G protein-coupled receptor- (GPCR-)G protein coupling on downstream signaling and receptor pharmacology. Furthermore, a small, hydrophobic dimer interface provides a starting framework for additional class A GPCR dimerization studies. Together, these findings uncover a mechanism of versatile regulation through oligomerization by which GPCRs can modulate their signaling.


  • Organizational Affiliation: 
    • iHuman Institute, ShanghaiTech University, Shanghai, China.

Macromolecule Content 

  • Total Structure Weight: 176 kDa 
  • Atom Count: 9,106 
  • Modeled Residue Count: 1,159 
  • Deposited Residue Count: 1,573 
  • Unique protein chains: 6

Macromolecules

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Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(i) subunit alpha-1356Homo 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)
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PHAROS:  P63096
GTEx:  ENSG00000127955 
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UniProt GroupP63096
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Reference Sequence
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Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1340Homo sapiensMutation(s): 0 
Gene Names: GNB1
UniProt & NIH Common Fund Data Resources
Find proteins for P62873 (Homo sapiens)
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PHAROS:  P62873
GTEx:  ENSG00000078369 
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UniProt GroupP62873
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Reference Sequence
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Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-271Homo sapiensMutation(s): 0 
Gene Names: GNG2
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P59768 (Homo sapiens)
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PHAROS:  P59768
GTEx:  ENSG00000186469 
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UniProt GroupP59768
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Reference Sequence
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Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
Apelin receptor early endogenous ligand32Homo sapiensMutation(s): 0 
Membrane Entity: Yes 
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Find proteins for P0DMC3 (Homo sapiens)
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PHAROS:  P0DMC3
GTEx:  ENSG00000248329 
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Reference Sequence
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Entity ID: 5
MoleculeChains  Sequence LengthOrganismDetailsImage
Soluble cytochrome b562,Apelin receptorE [auth R]477Escherichia coli, Homo sapiens
This entity is chimeric
Mutation(s): 0 
Gene Names: cybC, APLNR, AGTRL1, APJ
Membrane Entity: Yes 
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Find proteins for P0ABE7 (Escherichia coli)
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Go to UniProtKB:  P0ABE7
Find proteins for P35414 (Homo sapiens)
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Go to UniProtKB:  P35414
PHAROS:  P35414
GTEx:  ENSG00000134817 
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UniProt GroupsP0ABE7P35414
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Reference Sequence
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Entity ID: 6
MoleculeChains  Sequence LengthOrganismDetailsImage
scFv16F [auth S]297Homo sapiensMutation(s): 0 
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.78 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2022-07-27
    Type: Initial release
  • Version 1.1: 2024-11-20
    Changes: Data collection, Structure summary