9OIC | pdb_00009oic

Structure of shaker-IR-I384R

  • Classification: MEMBRANE PROTEIN
  • Organism(s): Drosophila melanogaster
  • Expression System: Homo sapiens
  • Mutation(s): Yes 

  • Deposited: 2025-05-06 Released: 2025-12-03 
  • Deposition Author(s): Liu, Y., Contreras, G.F.
  • Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), National Science Foundation (NSF, United States)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.48 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

Closed state structure of the pore revealed by uncoupled Shaker K + channel.

Liu, Y.Bassetto, C.Contreras, G.F.Perozo, E.Bezanilla, F.

(2025) Nat Commun 16: 10180-10180

  • DOI: https://doi.org/10.1038/s41467-025-65124-0
  • Primary Citation of Related Structures:  
    9OIC

  • PubMed Abstract: 

    Voltage gated potassium (Kv) channels regulate processes from cellular excitability to immune response and are major pharmaceutical targets. Despite recent structural advances, the closed state structure of the strictly coupled Kv1 family remains elusive. Here, we capture the structure of the Shaker potassium channel with a closed pore by uncoupling its voltage sensor domains from the pore domain. Structural determination of the uncoupled I384R mutant by single particle Cryo-EM reveals a fully closed pore coexisting with activated, non-relaxed voltage sensors. Comparison with the open pore structure suggests a roll-and-turn movement along the length of the pore-forming S6 helices, contrasting with canonical gating models based on limited movements of S6. These rotational-translational motions place two hydrophobic residues, one in the inner cavity and the other at the bundle crossing region, directly at the permeation pathway, limiting the pore radius to less than 1 Å. The selectivity filter is captured in a noncanonical state, partially expanded at G446, unlike previously described dilated or pinched filter conformations. Together, these findings suggest a reinterpretation of the mechanism of activation gating for strictly coupled Kv1 channels, highlighting the strictly sensor-pore coupling that underlies different functional states.


  • Organizational Affiliation
    • Committee on Neurobiology, University of Chicago, Chicago, IL, USA.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Potassium voltage-gated channel protein Shaker
A, B, C, D
615Drosophila melanogasterMutation(s): 1 
Gene Names: ShmnsCG12348
UniProt
Find proteins for P08510 (Drosophila melanogaster)
Explore P08510 
Go to UniProtKB:  P08510
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP08510
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.48 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21.2_5419
RECONSTRUCTIONcryoSPARC

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01-GM150272
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01-GM030376
National Science Foundation (NSF, United States)United StatesOMA-2121044

Revision History  (Full details and data files)

  • Version 1.0: 2025-12-03
    Type: Initial release