6C8G

Crystal structure of Transient Receptor Potential (TRP) channel TRPV4 in the presence of barium


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 6.31 Å
  • R-Value Free: 0.365 
  • R-Value Work: 0.370 
  • R-Value Observed: 0.369 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Cryo-EM and X-ray structures of TRPV4 reveal insight into ion permeation and gating mechanisms.

Deng, Z.Paknejad, N.Maksaev, G.Sala-Rabanal, M.Nichols, C.G.Hite, R.K.Yuan, P.

(2018) Nat Struct Mol Biol 25: 252-260

  • DOI: https://doi.org/10.1038/s41594-018-0037-5
  • Primary Citation of Related Structures:  
    6BBJ, 6C8F, 6C8G, 6C8H

  • PubMed Abstract: 

    The transient receptor potential (TRP) channel TRPV4 participates in multiple biological processes, and numerous TRPV4 mutations underlie several distinct and devastating diseases. Here we present the cryo-EM structure of Xenopus tropicalis TRPV4 at 3.8-Å resolution. The ion-conduction pore contains an intracellular gate formed by the inner helices, but lacks any extracellular gate in the selectivity filter, as observed in other TRPV channels. Anomalous X-ray diffraction analyses identify a single ion-binding site in the selectivity filter, thus explaining TRPV4 nonselectivity. Structural comparisons with other TRP channels and distantly related voltage-gated cation channels reveal an unprecedented, unique packing interface between the voltage-sensor-like domain and the pore domain, suggesting distinct gating mechanisms. Moreover, our structure begins to provide mechanistic insights to the large set of pathogenic mutations, offering potential opportunities for drug development.


  • Organizational Affiliation

    Department of Cell Biology and Physiology, Washington University School of Medicine, St. Louis, MO, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Transient receptor potential cation channel, subfamily V, member 4675Xenopus tropicalisMutation(s): 1 
Gene Names: trpv4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
BA
Query on BA

Download Ideal Coordinates CCD File 
B [auth A]BARIUM ION
Ba
XDFCIPNJCBUZJN-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 6.31 Å
  • R-Value Free: 0.365 
  • R-Value Work: 0.370 
  • R-Value Observed: 0.369 
  • Space Group: P 4 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 165.519α = 90
b = 165.519β = 90
c = 102.691γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2018-02-28
    Type: Initial release
  • Version 1.1: 2018-03-14
    Changes: Database references
  • Version 1.2: 2018-04-04
    Changes: Data collection
  • Version 1.3: 2023-10-04
    Changes: Data collection, Database references, Refinement description