7W2Z

Cryo-EM structure of the ghrelin-bound human ghrelin receptor-Go complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Molecular mechanism of agonism and inverse agonism in ghrelin receptor.

Qin, J.Cai, Y.Xu, Z.Ming, Q.Ji, S.Y.Wu, C.Zhang, H.Mao, C.Shen, D.D.Hirata, K.Ma, Y.Yan, W.Zhang, Y.Shao, Z.

(2022) Nat Commun 13: 300-300

  • DOI: https://doi.org/10.1038/s41467-022-27975-9
  • Primary Citation of Related Structures:  
    7F83, 7W2Z

  • PubMed Abstract: 

    Much effort has been invested in the investigation of the structural basis of G protein-coupled receptors (GPCRs) activation. Inverse agonists, which can inhibit GPCRs with constitutive activity, are considered useful therapeutic agents, but the molecular mechanism of such ligands remains insufficiently understood. Here, we report a crystal structure of the ghrelin receptor bound to the inverse agonist PF-05190457 and a cryo-electron microscopy structure of the active ghrelin receptor-Go complex bound to the endogenous agonist ghrelin. Our structures reveal a distinct binding mode of the inverse agonist PF-05190457 in the ghrelin receptor, different from the binding mode of agonists and neutral antagonists. Combining the structural comparisons and cellular function assays, we find that a polar network and a notable hydrophobic cluster are required for receptor activation and constitutive activity. Together, our study provides insights into the detailed mechanism of ghrelin receptor binding to agonists and inverse agonists, and paves the way to design specific ligands targeting ghrelin receptors.


  • Organizational Affiliation

    Department of Biophysics and Department of Pathology of Sir Run Run Shaw Hospital, Zhejiang University School of Medicine, 310058, Hangzhou, China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(o) subunit alpha236Homo sapiensMutation(s): 6 
Gene Names: GNAO1
Membrane Entity: Yes 
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PHAROS:  P09471
GTEx:  ENSG00000087258 
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UniProt GroupP09471
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Growth hormone secretagogue receptor type 1B [auth R]366Homo sapiensMutation(s): 0 
Gene Names: GHSR
Membrane Entity: Yes 
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Find proteins for Q92847 (Homo sapiens)
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Go to UniProtKB:  Q92847
PHAROS:  Q92847
GTEx:  ENSG00000121853 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2C [auth G]71Homo sapiensMutation(s): 0 
Gene Names: GNG2
Membrane Entity: Yes 
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Find proteins for P59768 (Homo sapiens)
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PHAROS:  P59768
GTEx:  ENSG00000186469 
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UniProt GroupP59768
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
ScFv16D [auth S]250synthetic constructMutation(s): 0 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1E [auth B]339Homo sapiensMutation(s): 0 
Gene Names: GNB1
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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: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Appetite-regulating hormoneF [auth L]16Homo sapiensMutation(s): 0 
Gene Names: GHRL
Membrane Entity: Yes 
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Find proteins for Q9UBU3 (Homo sapiens)
Explore Q9UBU3 
Go to UniProtKB:  Q9UBU3
PHAROS:  Q9UBU3
GTEx:  ENSG00000157017 
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UniProt GroupQ9UBU3
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.80 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: 2022-01-19
    Type: Initial release
  • Version 1.1: 2022-02-16
    Changes: Database references