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 9L9U | pdb_00009l9u

Arabidopsis GORK WT1


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.12 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 9L9U

This is version 1.1 of the entry. See complete history. 

Literature

Structure reveals a regulation mechanism of plant outward-rectifying K + channel GORK by structural rearrangements in the CNBD-Ankyrin bridge.

Yamanashi, T., Muraoka, Y., Furuta, T., Kume, T., Sekido, N., Saito, S., Terashima, S., Yokoyama, T., Tanaka, Y., Miyamoto, A., Sato, K., Ito, T., Nakazawa, H., Umetsu, M., Tanudjaja, E., Tsujii, M., Dreyer, I., Schroeder, J.I., Ishimaru, Y., Uozumi, N.

(2025) Proc Natl Acad Sci U S A 122: e2500070122-e2500070122

  • DOI: https://doi.org/10.1073/pnas.2500070122
  • Primary Citation Related Structures: 
    9L9U, 9LA0, 9LA1, 9LA2, 9LA3, 9LA7

  • PubMed Abstract: 

    Guard cells, which regulate stomatal apertures in plants, possess a sophisticated mechanism for regulating turgor pressure. The outward-rectifying "K + out " channel GORK, expressed in guard cells of the plant Arabidopsis thaliana , is a central component that promotes stomatal closure by releasing K + to the extracellular space, thereby lowering turgor pressure. To date, the structural basis underlying the regulation of the K + transport activity of GORK is unclear. Using cryo-EM, we determined the structures of the GORK outward-rectifying K + channel with a resolution of 3.16 to 3.27 Å in five distinct conformations that differ significantly in their C-terminal cyclic nucleotide binding domain (CNBD) and ankyrin repeat (ANK) domain. The C-linker connects the transmembrane domains to the C-terminal domains, i.e., CNBD, CNBD-Ankyrin bridge, and ANK. The structural changes and interactions in the C-linker determine whether the closed state of GORK is closer to the preopen state or in a more removed state from the open state of the channel. In particular, interconversion in the short sequence within the CNBD-Ankyrin bridge plays a decisive role in this determination. This region forms an α-helix in the preopened state, while it adopts a nonhelical structure in further distant closed states. The dynamics of the cytosolic region strongly suggest that the K + channel activity of GORK is regulated by cytosolic signaling factors during stomatal closure.


  • Organizational Affiliation: 
    • Department of Biomolecular Engineering, Graduate School of Engineering, Tohoku University, Sendai 980-8579, Japan.

Macromolecule Content 

  • Total Structure Weight: 385.64 kDa 
  • Atom Count: 21,836 
  • Modeled Residue Count: 2,692 
  • Deposited Residue Count: 3,336 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Potassium channel GORK
A, B, C, D
834Arabidopsis thalianaMutation(s): 0 
Gene Names: GORK, At5g37500, MPA22.4
Membrane Entity: Yes 
UniProt
Find proteins for Q94A76 (Arabidopsis thaliana)
Explore Q94A76 
Go to UniProtKB:  Q94A76
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ94A76
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.12 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21_5207

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Japan Society for the Promotion of Science (JSPS)Japan--
Japan Agency for Medical Research and Development (AMED)Japan--

Revision History  (Full details and data files)

  • Version 1.0: 2025-07-16
    Type: Initial release
  • Version 1.1: 2025-08-06
    Changes: Data collection, Database references