7XEV

Structure of mTRPV2_2-APB


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.27 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

Structural mechanisms of TRPV2 modulation by endogenous and exogenous ligands.

Su, N.Zhen, W.Zhang, H.Xu, L.Jin, Y.Chen, X.Zhao, C.Wang, Q.Wang, X.Li, S.Wen, H.Yang, W.Guo, J.Yang, F.

(2023) Nat Chem Biol 19: 72-80

  • DOI: https://doi.org/10.1038/s41589-022-01139-8
  • Primary Citation of Related Structures:  
    7XEM, 7XEO, 7XER, 7XEU, 7XEV, 7XEW, 7YEP

  • PubMed Abstract: 

    The transient receptor potential vanilloid 2 (TRPV2) ion channel is a polymodal receptor widely involved in many physiological and pathological processes. Despite many TRPV2 modulators being identified, whether and how TRPV2 is regulated by endogenous lipids remains elusive. Here, we report an endogenous cholesterol molecule inside the vanilloid binding pocket (VBP) of TRPV2, with a 'head down, tail up' configuration, resolved at 3.2 Å using cryo-EM. Cholesterol binding antagonizes ligand activation of TRPV2, which is removed from VBP by methyl-β-cyclodextrin (MβCD) as resolved at 2.9 Å. We also observed that estradiol (E2) potentiated TRPV2 activation by 2-aminoethoxydiphenyl borate (2-APB), a classic tool compound for TRP channels. Our cryo-EM structures (resolved at 2.8-3.3 Å) further suggest how E2 disturbed cholesterol binding and how 2-APB bound within the VBP with E2 or without both E2 and endogenous cholesterol, respectively. Therefore, our study has established the structural basis for ligand recognition of the inhibitory endogenous cholesterol and excitatory exogenous 2-APB in TRPV2.


  • Organizational Affiliation

    Department of Biophysics, and Kidney Disease Center of the First Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Transient receptor potential cation channel subfamily V member 2
A, B, C, D
756Mus musculusMutation(s): 0 
Gene Names: Trpv2Grc
Membrane Entity: Yes 
UniProt
Find proteins for Q9WTR1 (Mus musculus)
Explore Q9WTR1 
Go to UniProtKB:  Q9WTR1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9WTR1
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.27 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Released Date: 2022-08-17 
  • Deposition Author(s): Su, N.

Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China32122040

Revision History  (Full details and data files)

  • Version 1.0: 2022-08-17
    Type: Initial release
  • Version 1.1: 2023-03-01
    Changes: Database references, Structure summary
  • Version 1.2: 2024-07-03
    Changes: Data collection