8IJK

human KCNQ2-CaM-Ebio1 complex in the presence of PIP2


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

A small-molecule activation mechanism that directly opens the KCNQ2 channel.

Zhang, S.Ma, D.Wang, K.Li, Y.Yang, Z.Li, X.Li, J.He, J.Mei, L.Ye, Y.Chen, Z.Shen, J.Hou, P.Guo, J.Zhang, Q.Yang, H.

(2024) Nat Chem Biol 

  • DOI: https://doi.org/10.1038/s41589-023-01515-y
  • Primary Citation of Related Structures:  
    8IJK, 8X43

  • PubMed Abstract: 

    Pharmacological activation of voltage-gated ion channels by ligands serves as the basis for therapy and mainly involves a classic gating mechanism that augments the native voltage-dependent open probability. Through structure-based virtual screening, we identified a new scaffold compound, Ebio1, serving as a potent and subtype-selective activator for the voltage-gated potassium channel KCNQ2 and featuring a new activation mechanism. Single-channel patch-clamp, cryogenic-electron microscopy and molecular dynamic simulations, along with chemical derivatives, reveal that Ebio1 engages the KCNQ2 activation by generating an extended channel gate with a larger conductance at the saturating voltage (+50 mV). This mechanism is different from the previously observed activation mechanism of ligands on voltage-gated ion channels. Ebio1 caused S6 helices from residues S303 and F305 to perform a twist-to-open movement, which was sufficient to open the KCNQ2 gate. Overall, our findings provide mechanistic insights into the activation of KCNQ2 channel by Ebio1 and lend support for KCNQ-related drug development.


  • Organizational Affiliation

    Shanghai Key Laboratory of Regulatory Biology, Institute of Biomedical Sciences and School of Life Sciences, East China Normal University, Shanghai, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Potassium voltage-gated channel subfamily KQT member 2
A, B, C, D
656Homo sapiensMutation(s): 0 
Gene Names: KCNQ2
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for O43526 (Homo sapiens)
Explore O43526 
Go to UniProtKB:  O43526
PHAROS:  O43526
GTEx:  ENSG00000075043 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO43526
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Calmodulin-1
E, F, G, H
149Homo sapiensMutation(s): 0 
Gene Names: CALM1CALMCAMCAM1
UniProt & NIH Common Fund Data Resources
Find proteins for P0DP23 (Homo sapiens)
Explore P0DP23 
Go to UniProtKB:  P0DP23
PHAROS:  P0DP23
GTEx:  ENSG00000198668 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0DP23
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Released Date: 2024-01-17 
  • Deposition Author(s): Ma, D., Guo, J.

Funding OrganizationLocationGrant Number
Ministry of Science and Technology (MoST, China)China2020YFA0908501
Ministry of Science and Technology (MoST, China)China2018YFA0508100

Revision History  (Full details and data files)

  • Version 1.0: 2024-01-17
    Type: Initial release