5IWK

Structure of Transient Receptor Potential (TRP) channel TRPV6


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.247 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.261 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Crystal structure of the epithelial calcium channel TRPV6.

Saotome, K.Singh, A.K.Yelshanskaya, M.V.Sobolevsky, A.I.

(2016) Nature 534: 506-511

  • DOI: 10.1038/nature17975
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Precise regulation of calcium homeostasis is essential for many physiological functions. The Ca(2+)-selective transient receptor potential (TRP) channels TRPV5 and TRPV6 play vital roles in calcium homeostasis as Ca(2+) uptake channels in epithelial ...

    Precise regulation of calcium homeostasis is essential for many physiological functions. The Ca(2+)-selective transient receptor potential (TRP) channels TRPV5 and TRPV6 play vital roles in calcium homeostasis as Ca(2+) uptake channels in epithelial tissues. Detailed structural bases for their assembly and Ca(2+) permeation remain obscure. Here we report the crystal structure of rat TRPV6 at 3.25 Å resolution. The overall architecture of TRPV6 reveals shared and unique features compared with other TRP channels. Intracellular domains engage in extensive interactions to form an intracellular 'skirt' involved in allosteric modulation. In the K(+) channel-like transmembrane domain, Ca(2+) selectivity is determined by direct coordination of Ca(2+) by a ring of aspartate side chains in the selectivity filter. On the basis of crystallographically identified cation-binding sites at the pore axis and extracellular vestibule, we propose a Ca(2+) permeation mechanism. Our results provide a structural foundation for understanding the regulation of epithelial Ca(2+) uptake and its role in pathophysiology.


    Organizational Affiliation

    Department of Biochemistry and Molecular Biophysics, Columbia University, 650 West 168th Street, New York, New York 10032, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Transient receptor potential cation channel subfamily V member 6
A
672Rattus norvegicusMutation(s): 4 
Gene Names: Trpv6
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
Channels: Transient Receptor Potential (TRP)
Protein: 
TRPV6 transient receptor potential calcium channel
Find proteins for Q9R186 (Rattus norvegicus)
Go to UniProtKB:  Q9R186
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CA
Query on CA

Download SDF File 
Download CCD File 
A
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
DTB
Query on DTB

Download SDF File 
Download CCD File 
A
6-(5-METHYL-2-OXO-IMIDAZOLIDIN-4-YL)-HEXANOIC ACID
D-DESTHIOBIOTIN
C10 H18 N2 O3
AUTOLBMXDDTRRT-JGVFFNPUSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.247 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.261 
  • Space Group: P 4 21 2
Unit Cell:
Length (Å)Angle (°)
a = 143.818α = 90.00
b = 143.818β = 90.00
c = 113.224γ = 90.00
Software Package:
Software NamePurpose
XDSdata scaling
PHASERphasing
PHENIXrefinement
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of Neurological Disorders and StrokeUnited StatesR01 NS083660
National Institutes of Health/National Institute of General Medical SciencesUnited StatesT32GM008281

Revision History 

  • Version 1.0: 2016-06-15
    Type: Initial release
  • Version 1.1: 2016-06-29
    Type: Database references
  • Version 1.2: 2016-07-06
    Type: Data collection
  • Version 1.3: 2017-09-20
    Type: Author supporting evidence, Derived calculations