8JVI

Structure of human TRPV4 with antagonist A2


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.21 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


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Literature

Structural Pharmacology of TRPV4 Antagonists.

Fan, J.Guo, C.Liao, D.Ke, H.Lei, J.Xie, W.Tang, Y.Tominaga, M.Huang, Z.Lei, X.

(2024) Adv Sci (Weinh) : e2401583-e2401583

  • DOI: https://doi.org/10.1002/advs.202401583
  • Primary Citation of Related Structures:  
    8JU5, 8JU6, 8JVI, 8JVJ

  • PubMed Abstract: 

    The nonselective calcium-permeable Transient Receptor Potential Cation Channel Subfamily V Member4 (TRPV4) channel regulates various physiological activities. Dysfunction of TRPV4 is linked to many severe diseases, including edema, pain, gastrointestinal disorders, lung diseases, and inherited neurodegeneration. Emerging TRPV4 antagonists show potential clinical benefits. However, the molecular mechanisms of TRPV4 antagonism remain poorly understood. Here, cryo-electron microscopy (cryo-EM) structures of human TRPV4 are presented in-complex with two potent antagonists, revealing the detailed binding pockets and regulatory mechanisms of TRPV4 gating. Both antagonists bind to the voltage-sensing-like domain (VSLD) and stabilize the channel in closed states. These two antagonists induce TRPV4 to undergo an apparent fourfold to twofold symmetry transition. Moreover, it is demonstrated that one of the antagonists binds to the VSLD extended pocket, which differs from the canonical VSLD pocket. Complemented with functional and molecular dynamics simulation results, this study provides crucial mechanistic insights into TRPV4 regulation by small-molecule antagonists, which may facilitate future drug discovery targeting TRPV4.


  • Organizational Affiliation

    Beijing National Laboratory for Molecular Sciences, Key Laboratory of Bioorganic Chemistry and Molecular Engineering of Ministry of Education, College of Chemistry and Molecular Engineering, Peking-Tsinghua Center for Life Sciences, Peking University, Beijing, 100871, 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 4,3C-GFPA [auth B],
B [auth C],
C [auth D],
D [auth A]
1,144Homo sapienssynthetic construct
This entity is chimeric
Mutation(s): 0 
Gene Names: TRPV4VRL2VROAC
UniProt & NIH Common Fund Data Resources
Find proteins for Q9HBA0 (Homo sapiens)
Explore Q9HBA0 
Go to UniProtKB:  Q9HBA0
PHAROS:  Q9HBA0
GTEx:  ENSG00000111199 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9HBA0
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
F9M (Subject of Investigation/LOI)
Query on F9M

Download Ideal Coordinates CCD File 
E [auth B],
F [auth C],
G [auth D],
H [auth A]
[6-[[4-(2,4-dimethyl-1,3-thiazol-5-yl)-1,3-thiazol-2-yl]amino]pyridin-3-yl]-[(1~{S},5~{R})-3-[5-(trifluoromethyl)pyrimidin-2-yl]-3,8-diazabicyclo[3.2.1]octan-8-yl]methanone
C25 H23 F3 N8 O S2
JARXMNZSCUFQHX-HDICACEKSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.21 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China21625201

Revision History  (Full details and data files)

  • Version 1.0: 2024-05-08
    Type: Initial release