7DTD

Voltage-gated sodium channel Nav1.1 and beta4


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Comparative structural analysis of human Na v 1.1 and Na v 1.5 reveals mutational hotspots for sodium channelopathies.

Pan, X.Li, Z.Jin, X.Zhao, Y.Huang, G.Huang, X.Shen, Z.Cao, Y.Dong, M.Lei, J.Yan, N.

(2021) Proc Natl Acad Sci U S A 118

  • DOI: https://doi.org/10.1073/pnas.2100066118
  • Primary Citation of Related Structures:  
    7DTD

  • PubMed Abstract: 

    Among the nine subtypes of human voltage-gated sodium (Na v ) channels, the brain and cardiac isoforms, Na v 1.1 and Na v 1.5, each carry more than 400 missense mutations respectively associated with epilepsy and cardiac disorders. High-resolution structures are required for structure-function relationship dissection of the disease variants. We report the cryo-EM structures of the full-length human Na v 1.1-β4 complex at 3.3 Å resolution here and the Na v 1.5-E1784K variant in the accompanying paper. Up to 341 and 261 disease-related missense mutations in Na v 1.1 and Na v 1.5, respectively, are resolved. Comparative structural analysis reveals several clusters of disease mutations that are common to both Na v 1.1 and Na v 1.5. Among these, the majority of mutations on the extracellular loops above the pore domain and the supporting segments for the selectivity filter may impair structural integrity, while those on the pore domain and the voltage-sensing domains mostly interfere with electromechanical coupling and fast inactivation. Our systematic structural delineation of these mutations provides important insight into their pathogenic mechanism, which will facilitate the development of precise therapeutic interventions against various sodium channelopathies.


  • Organizational Affiliation

    State Key Laboratory of Membrane Biology, Beijing Advanced Innovation Center for Structural Biology, Tsinghua-Peking Joint Center for Life Sciences, School of Life Sciences, Tsinghua University, Beijing 100084, China; panxj@tsinghua.edu.cn nyan@princeton.edu.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Sodium channel subunit beta-4A [auth B]228Homo sapiensMutation(s): 0 
Gene Names: SCN4B
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for Q8IWT1 (Homo sapiens)
Explore Q8IWT1 
Go to UniProtKB:  Q8IWT1
PHAROS:  Q8IWT1
GTEx:  ENSG00000177098 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8IWT1
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Sodium channel protein type 1 subunit alphaB [auth A]2,052Homo sapiensMutation(s): 0 
Gene Names: SCN1ANAC1SCN1
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P35498 (Homo sapiens)
Explore P35498 
Go to UniProtKB:  P35498
PHAROS:  P35498
GTEx:  ENSG00000144285 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP35498
Glycosylation
Glycosylation Sites: 4Go to GlyGen: P35498-1
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Ministry of Science and Technology (MoST, China)China2016YFA0500402

Revision History  (Full details and data files)

  • Version 1.0: 2021-04-07
    Type: Initial release
  • Version 1.1: 2024-11-13
    Changes: Data collection, Database references, Structure summary