5V4S

CryoEM Structure of a Prokaryotic Cyclic Nucleotide-Gated Ion Channel


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.6 of the entry. See complete history


Literature

CryoEM structure of a prokaryotic cyclic nucleotide-gated ion channel.

James, Z.M.Borst, A.J.Haitin, Y.Frenz, B.DiMaio, F.Zagotta, W.N.Veesler, D.

(2017) Proc Natl Acad Sci U S A 114: 4430-4435

  • DOI: https://doi.org/10.1073/pnas.1700248114
  • Primary Citation of Related Structures:  
    5V4S

  • PubMed Abstract: 

    Cyclic nucleotide-gated (CNG) and hyperpolarization-activated cyclic nucleotide-regulated (HCN) ion channels play crucial physiological roles in phototransduction, olfaction, and cardiac pace making. These channels are characterized by the presence of a carboxyl-terminal cyclic nucleotide-binding domain (CNBD) that connects to the channel pore via a C-linker domain. Although cyclic nucleotide binding has been shown to promote CNG and HCN channel opening, the precise mechanism underlying gating remains poorly understood. Here we used cryoEM to determine the structure of the intact LliK CNG channel isolated from Leptospira licerasiae -which shares sequence similarity to eukaryotic CNG and HCN channels-in the presence of a saturating concentration of cAMP. A short S4-S5 linker connects nearby voltage-sensing and pore domains to produce a non-domain-swapped transmembrane architecture, which appears to be a hallmark of this channel family. We also observe major conformational changes of the LliK C-linkers and CNBDs relative to the crystal structures of isolated C-linker/CNBD fragments and the cryoEM structures of related CNG, HCN, and KCNH channels. The conformation of our LliK structure may represent a functional state of this channel family not captured in previous studies.


  • Organizational Affiliation

    Department of Physiology and Biophysics, University of Washington, Seattle, WA 98195.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Transporter, cation channel family / cyclic nucleotide-binding domain multi-domain protein
A, B, C, D
465Leptospira licerasiae serovar Varillal str. VAR 010Mutation(s): 0 
Gene Names: LEP1GSC185_1946
Membrane Entity: Yes 
UniProt
Find proteins for I0XVQ9 (Leptospira licerasiae serovar Varillal str. VAR 010)
Explore I0XVQ9 
Go to UniProtKB:  I0XVQ9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupI0XVQ9
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION2.0
MODEL REFINEMENTRosetta

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Eye Institute (NIH/NEI)United StatesR01EY010329
National Institutes of Health/National Institute of Mental Health (NIH/NIMH)United StatesR01MH102378
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesT32GM008268
American Heart AssociationUnited States14CSA20380095

Revision History  (Full details and data files)

  • Version 1.0: 2017-04-12
    Type: Initial release
  • Version 1.1: 2017-04-26
    Changes: Database references
  • Version 1.2: 2017-05-03
    Changes: Other
  • Version 1.3: 2017-05-10
    Changes: Database references
  • Version 1.4: 2017-09-27
    Changes: Author supporting evidence, Data collection, Experimental preparation
  • Version 1.5: 2019-11-27
    Changes: Author supporting evidence
  • Version 1.6: 2024-03-13
    Changes: Data collection, Database references