7RXQ | pdb_00007rxq

Crystal structure of junctophilin-2 in complex with a CaV1.1 peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.03 Å
  • R-Value Free: 
    0.252 (Depositor), 0.251 (DCC) 
  • R-Value Work: 
    0.202 (Depositor) 
  • R-Value Observed: 
    0.205 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 7RXQ

This is version 1.2 of the entry. See complete history

Literature

Structures of the junctophilin/voltage-gated calcium channel interface reveal hot spot for cardiomyopathy mutations.

Yang, Z.F.Panwar, P.McFarlane, C.R.Tuinte, W.E.Campiglio, M.Van Petegem, F.

(2022) Proc Natl Acad Sci U S A 119: e2120416119-e2120416119

  • DOI: https://doi.org/10.1073/pnas.2120416119
  • Primary Citation Related Structures: 
    7RW4, 7RXE, 7RXQ

  • PubMed Abstract: 

    SignificanceIon channels have evolved the ability to communicate with one another, either through protein-protein interactions, or indirectly via intermediate diffusible messenger molecules. In special cases, the channels are part of different membranes. In muscle tissue, the T-tubule membrane is in proximity to the sarcoplasmic reticulum, allowing communication between L-type calcium channels and ryanodine receptors. This process is critical for excitation-contraction coupling and requires auxiliary proteins like junctophilin (JPH). JPHs are targets for disease-associated mutations, most notably hypertrophic cardiomyopathy mutations in the JPH2 isoform. Here we provide high-resolution snapshots of JPH, both alone and in complex with a calcium channel peptide, and show how this interaction is targeted by cardiomyopathy mutations.


  • Organizational Affiliation
    • Department of Biochemistry and Molecular Biology, The Life Sciences Institute, University of British Columbia, Vancouver, BC V6T 1Z3, Canada.

Macromolecule Content 

  • Total Structure Weight: 38.34 kDa 
  • Atom Count: 2,310 
  • Modeled Residue Count: 290 
  • Deposited Residue Count: 343 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Junctophilin-2 N-terminal fragment327Homo sapiensMutation(s): 0 
Gene Names: JPH2JP2
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BR39 (Homo sapiens)
Explore Q9BR39 
Go to UniProtKB:  Q9BR39
PHAROS:  Q9BR39
GTEx:  ENSG00000149596 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9BR39
Sequence Annotations
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Reference Sequence
Find similar proteins by:  Sequence   |   3D Structure  
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Voltage-dependent L-type calcium channel subunit alpha-1S16Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for P07293 (Oryctolagus cuniculus)
Explore P07293 
Go to UniProtKB:  P07293
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP07293
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.03 Å
  • R-Value Free:  0.252 (Depositor), 0.251 (DCC) 
  • R-Value Work:  0.202 (Depositor) 
  • R-Value Observed: 0.205 (Depositor) 
Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 116.394α = 90
b = 30.381β = 115.96
c = 96.679γ = 90
Software Package:
Software NamePurpose
xia2data scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
xia2data reduction
PHASERphasing

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Canadian Institutes of Health Research (CIHR)Canada--

Revision History  (Full details and data files)

  • Version 1.0: 2022-02-23
    Type: Initial release
  • Version 1.1: 2022-03-16
    Changes: Database references
  • Version 1.2: 2023-10-18
    Changes: Data collection, Refinement description