4JPZ

Voltage-gated sodium channel 1.2 C-terminal domain in complex with FGF13U and Ca2+/calmodulin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.02 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.212 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Structural analyses of Ca(2+)/CaM interaction with NaV channel C-termini reveal mechanisms of calcium-dependent regulation.

Wang, C.Chung, B.C.Yan, H.Wang, H.G.Lee, S.Y.Pitt, G.S.

(2014) Nat Commun 5: 4896-4896

  • DOI: 10.1038/ncomms5896
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Ca(2+) regulates voltage-gated Na(+) (NaV) channels, and perturbed Ca(2+) regulation of NaV function is associated with epilepsy syndromes, autism and cardiac arrhythmias. Understanding the disease mechanisms, however, has been hindered by a lack of ...

    Ca(2+) regulates voltage-gated Na(+) (NaV) channels, and perturbed Ca(2+) regulation of NaV function is associated with epilepsy syndromes, autism and cardiac arrhythmias. Understanding the disease mechanisms, however, has been hindered by a lack of structural information and competing models for how Ca(2+) affects NaV channel function. Here we report the crystal structures of two ternary complexes of a human NaV cytosolic C-terminal domain (CTD), a fibroblast growth factor homologous factor and Ca(2+)/calmodulin (Ca(2+)/CaM). These structures rule out direct binding of Ca(2+) to the NaV CTD and uncover new contacts between CaM and the NaV CTD. Probing these new contacts with biochemical and functional experiments allows us to propose a mechanism by which Ca(2+) could regulate NaV channels. Further, our model provides hints towards understanding the molecular basis of the neurologic disorders and cardiac arrhythmias caused by NaV channel mutations.


    Organizational Affiliation

    1] Ion Channel Research Unit, Department of Medicine, Duke University Medical Center, 2 Genome Court, Durham, North Carolina 27710, USA [2] Division of Cardiology, Department of Medicine, Duke University Medical Center, 2 Genome Court, Durham, North Carolina 27710, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Fibroblast growth factor 13
A, E
192Homo sapiensMutation(s): 0 
Gene Names: FGF13 (FHF2)
Find proteins for Q92913 (Homo sapiens)
Go to Gene View: FGF13
Go to UniProtKB:  Q92913
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Sodium channel protein type 2 subunit alpha
B, H
184Homo sapiensMutation(s): 0 
Gene Names: SCN2A (NAC2, SCN2A1, SCN2A2)
Find proteins for Q99250 (Homo sapiens)
Go to Gene View: SCN2A
Go to UniProtKB:  Q99250
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Calmodulin
C, I
149Homo sapiensMutation(s): 0 
Gene Names: CALM1 (CALM, CAM, CAM1)
Find proteins for P0DP23 (Homo sapiens)
Go to Gene View: CALM1
Go to UniProtKB:  P0DP23
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CA
Query on CA

Download SDF File 
Download CCD File 
C, I
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.02 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.212 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 153.133α = 90.00
b = 86.106β = 100.90
c = 109.399γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data collection
SHELXmodel building
HKL-2000data reduction
HKL-2000data scaling
SHELXphasing
PHENIXrefinement
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-04-16
    Type: Initial release
  • Version 1.1: 2014-10-22
    Type: Database references
  • Version 1.2: 2014-12-03
    Type: Structure summary
  • Version 1.3: 2017-11-15
    Type: Refinement description