9J34 | pdb_00009j34

Cryo-EM structure of Arabidopsis CNGC1


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.51 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 9J34

This is version 1.3 of the entry. See complete history

Literature

Cryo-EM structures of Arabidopsis CNGC1 and CNGC5 reveal molecular mechanisms underlying gating and calcium selectivity.

Wang, J.Du, B.Y.Zhang, X.Qu, X.Yang, Y.Yang, Z.Wang, Y.F.Zhang, P.

(2025) Nat Plants 11: 632-642

  • DOI: https://doi.org/10.1038/s41477-025-01923-z
  • Primary Citation Related Structures: 
    9J34, 9J35, 9J36

  • PubMed Abstract: 

    Plant cyclic nucleotide-gated channels (CNGCs) belong to the cyclic nucleotide-binding domain (CNBD) channel family, but are phylogenetically classified in a distinct branch. In contrast to their animal counterparts of K + -selective or non-selective cation channels, plant CNGCs mainly mediate Ca 2+ influx and are involved in various physiological processes, such as stomatal movements, pollen-tube growth and immune responses. Here, we present the cryo-EM structure and electrophysiological analysis of plant CNGC representatives, Arabidopsis CNGC1 and CNGC5. We found that CNGC1 and CNGC5 contain a unique extracellular domain featuring disulfide bonds that is essential for channel gating via coupling of the voltage-sensing domain with the pore domain. The pore domain selectivity filter possesses a Gln residue at the constriction site that determines the Ca 2+ selectivity. Replacement of this Gln with Glu, typically observed in CNBD-type non-selective cation channels, could convert CNGC1 and CNGC5 from Ca 2+ -selective channels to non-selective cation channels permeable to Ca 2+ , Na + or K + . In addition, we found that the CNGC1 and CNGC5 CNBD homology domain contains intrinsic-ligand-like interactions, which may devoid the binding of cyclic nucleotides and lead to gating independent of cAMP or cGMP. This research not only provides a mechanistic understanding of plant CNGCs' function, but also adds to the comprehensive knowledge of the CNBD channels.


  • Organizational Affiliation
    • National Key Laboratory of Plant Molecular Genetics, CAS Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai, China.

Macromolecule Content 

  • Total Structure Weight: 332.93 kDa 
  • Atom Count: 16,427 
  • Modeled Residue Count: 2,008 
  • Deposited Residue Count: 2,864 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Cyclic nucleotide-gated ion channel 1A [auth D],
B [auth A],
C [auth B],
D [auth C]
716Arabidopsis thalianaMutation(s): 0 
Gene Names: CNGC1At5g53130MFH8.6
Membrane Entity: Yes 
UniProt
Find proteins for O65717 (Arabidopsis thaliana)
Explore O65717 
Go to UniProtKB:  O65717
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO65717
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.51 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China32025020

Revision History  (Full details and data files)

  • Version 1.0: 2025-02-19
    Type: Initial release
  • Version 1.1: 2025-02-26
    Changes: Data collection, Database references
  • Version 1.2: 2025-03-05
    Changes: Data collection, Database references
  • Version 1.3: 2025-04-02
    Changes: Data collection, Database references