8J02

Human KCNQ2(F104A)-CaM-PIP2-CBD complex in state II


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 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

Ligand activation mechanisms of human KCNQ2 channel.

Ma, D.Zheng, Y.Li, X.Zhou, X.Yang, Z.Zhang, Y.Wang, L.Zhang, W.Fang, J.Zhao, G.Hou, P.Nan, F.Yang, W.Su, N.Gao, Z.Guo, J.

(2023) Nat Commun 14: 6632-6632

  • DOI: https://doi.org/10.1038/s41467-023-42416-x
  • Primary Citation of Related Structures:  
    8IZY, 8J00, 8J01, 8J02, 8J03, 8J04, 8J05, 8W4U

  • PubMed Abstract: 

    The human voltage-gated potassium channel KCNQ2/KCNQ3 carries the neuronal M-current, which helps to stabilize the membrane potential. KCNQ2 can be activated by analgesics and antiepileptic drugs but their activation mechanisms remain unclear. Here we report cryo-electron microscopy (cryo-EM) structures of human KCNQ2-CaM in complex with three activators, namely the antiepileptic drug cannabidiol (CBD), the lipid phosphatidylinositol 4,5-bisphosphate (PIP 2 ), and HN37 (pynegabine), an antiepileptic drug in the clinical trial, in an either closed or open conformation. The activator-bound structures, along with electrophysiology analyses, reveal the binding modes of two CBD, one PIP 2 , and two HN37 molecules in each KCNQ2 subunit, and elucidate their activation mechanisms on the KCNQ2 channel. These structures may guide the development of antiepileptic drugs and analgesics that target KCNQ2.


  • Organizational Affiliation

    Department of Biophysics and Department of Neurology of the Fourth Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, Zhejiang, 310058, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Potassium voltage-gated channel subfamily KQT member 2A,
B,
D,
F [auth G]
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
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Calmodulin-1C,
E,
G [auth H],
H [auth F]
177Homo 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
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PIO
Query on PIO

Download Ideal Coordinates CCD File 
J [auth A],
K [auth B],
M [auth D],
O [auth G]
[(2R)-2-octanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate
C25 H49 O19 P3
XLNCEHRXXWQMPK-MJUMVPIBSA-N
P0T
Query on P0T

Download Ideal Coordinates CCD File 
I [auth A],
L [auth B],
N [auth D],
P [auth G]
cannabidiol
C21 H30 O2
QHMBSVQNZZTUGM-ZWKOTPCHSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Ministry of Science and Technology (MoST, China)China2020YFA0908501
Ministry of Science and Technology (MoST, China)China2018YFA0508100
National Natural Science Foundation of China (NSFC)China81825021
National Natural Science Foundation of China (NSFC)China92169202

Revision History  (Full details and data files)

  • Version 1.0: 2023-12-13
    Type: Initial release