7VQX

Cryo-EM structure of human vasoactive intestinal polypeptide receptor 2 (VIP2R) in complex with PACAP27 and Gs


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.74 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

A distinctive ligand recognition mechanism by the human vasoactive intestinal polypeptide receptor 2.

Xu, Y.Feng, W.Zhou, Q.Liang, A.Li, J.Dai, A.Zhao, F.Yan, J.Chen, C.W.Li, H.Zhao, L.H.Xia, T.Jiang, Y.Xu, H.E.Yang, D.Wang, M.W.

(2022) Nat Commun 13: 2272-2272

  • DOI: https://doi.org/10.1038/s41467-022-30041-z
  • Primary Citation of Related Structures:  
    7VQX, 7WBJ

  • PubMed Abstract: 

    Class B1 of G protein-coupled receptors (GPCRs) comprises 15 members activated by physiologically important peptide hormones. Among them, vasoactive intestinal polypeptide receptor 2 (VIP2R) is expressed in the central and peripheral nervous systems and involved in a number of pathophysiological conditions, including pulmonary arterial hypertension, autoimmune and psychiatric disorders, in which it is thus a valuable drug target. Here, we report the cryo-electron microscopy structure of the human VIP2R bound to its endogenous ligand PACAP27 and the stimulatory G protein. Different from all reported peptide-bound class B1 GPCR structures, the N-terminal α-helix of VIP2R adopts a unique conformation that deeply inserts into a cleft between PACAP27 and the extracellular loop 1, thereby stabilizing the peptide-receptor interface. Its truncation or extension significantly decreased VIP2R-mediated cAMP accumulation. Our results provide additional information on peptide recognition and receptor activation among class B1 GPCRs and may facilitate the design of better therapeutics.


  • Organizational Affiliation

    Department of Pharmacology, School of Basic Medical Sciences, Fudan University, Shanghai, 200032, China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(s) subunit alpha isoforms short394Bos taurusMutation(s): 9 
Gene Names: GNASGNAS1
EC: 3.6.5
Membrane Entity: Yes 
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1400Rattus norvegicusMutation(s): 0 
Gene Names: Gnb1
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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]71Bos taurusMutation(s): 0 
Gene Names: GNG2
Membrane Entity: Yes 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Pituitary adenylate cyclase-activating polypeptide 27D [auth L]27Homo sapiensMutation(s): 0 
Membrane Entity: Yes 
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Find proteins for P18509 (Homo sapiens)
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PHAROS:  P18509
GTEx:  ENSG00000141433 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Nanobody-35E [auth N]140synthetic constructMutation(s): 0 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Vasoactive intestinal polypeptide receptor 2F [auth R]573Homo sapiensMutation(s): 0 
Gene Names: VIPR2VIP2R
Membrane Entity: Yes 
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Find proteins for P41587 (Homo sapiens)
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PHAROS:  P41587
GTEx:  ENSG00000106018 
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.74 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China81872915
National Natural Science Foundation of China (NSFC)China82073904
National Natural Science Foundation of China (NSFC)China81773792
National Natural Science Foundation of China (NSFC)China81973373
National Natural Science Foundation of China (NSFC)China21704064

Revision History  (Full details and data files)

  • Version 1.0: 2022-05-18
    Type: Initial release
  • Version 1.1: 2024-10-23
    Changes: Data collection, Structure summary