5J8V

Structure of rabbit ryanodine receptor RyR1 open state activated by calcium ion

  • Classification: TRANSPORT PROTEIN
  • Organism(s): Oryctolagus cuniculus
  • Mutation(s): No 
  • Membrane Protein: Yes  PDBTM

  • Deposited: 2016-04-08 Released: 2016-09-14 
  • Deposition Author(s): Wang, X., Wei, R., Yin, C., Sun, F.
  • Funding Organization(s): Strategic Priority Research Program of Chinese Academy of Sciences, Ministry of Science & Technology of China, National Natural Science Foundation of China

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.90 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 insights into Ca(2+)-activated long-range allosteric channel gating of RyR1

Wei, R.Wang, X.Zhang, Y.Mukherjee, S.Zhang, L.Chen, Q.Huang, X.Jing, S.Liu, C.Li, S.Wang, G.Xu, Y.Zhu, S.Williams, A.J.Sun, F.Yin, C.C.

(2016) Cell Res 26: 977-994

  • DOI: https://doi.org/10.1038/cr.2016.99
  • Primary Citation of Related Structures:  
    5J8V

  • PubMed Abstract: 

    Ryanodine receptors (RyRs) are a class of giant ion channels with molecular mass over 2.2 mega-Daltons. These channels mediate calcium signaling in a variety of cells. Since more than 80% of the RyR protein is folded into the cytoplasmic assembly and the remaining residues form the transmembrane domain, it has been hypothesized that the activation and regulation of RyR channels occur through an as yet uncharacterized long-range allosteric mechanism. Here we report the characterization of a Ca(2+)-activated open-state RyR1 structure by cryo-electron microscopy. The structure has an overall resolution of 4.9 Å and a resolution of 4.2 Å for the core region. In comparison with the previously determined apo/closed-state structure, we observed long-range allosteric gating of the channel upon Ca(2+) activation. In-depth structural analyses elucidated a novel channel-gating mechanism and a novel ion selectivity mechanism of RyR1. Our work not only provides structural insights into the molecular mechanisms of channel gating and regulation of RyRs, but also sheds light on structural basis for channel-gating and ion selectivity mechanisms for the six-transmembrane-helix cation channel family.


  • Organizational Affiliation

    Department of Biophysics, The Health Science Center, Peking University, Beijing 100191, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Ryanodine receptor 1
A, B, C, D
5,037Oryctolagus cuniculusMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P11716 (Oryctolagus cuniculus)
Explore P11716 
Go to UniProtKB:  P11716
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP11716
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION1.4
MODEL REFINEMENTRefmac5

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Strategic Priority Research Program of Chinese Academy of SciencesChinaXDB08030202
Ministry of Science & Technology of ChinaChina2012CB917200
Ministry of Science & Technology of ChinaChina2010CB912400
National Natural Science Foundation of ChinaChina31270768

Revision History  (Full details and data files)

  • Version 1.0: 2016-09-14
    Type: Initial release
  • Version 1.1: 2018-07-25
    Changes: Advisory, Data collection
  • Version 1.2: 2019-12-11
    Changes: Experimental preparation