25JX | pdb_000025jx

Cryo-EM structure of the Arabidopsis thaliana potassium transporter 5 incubated with AMPPNP

PDB DOI: https://doi.org/10.2210/pdb25JX/pdb
EM Map EMD-80170: EMDB EMDataResource

Classification: MEMBRANE PROTEIN
Organism(s): Arabidopsis thaliana
Expression System: Homo sapiens
Mutation(s): No

Deposited: 2026-04-08 Released: 2026-09-02
Deposition Author(s): Wang, C., Wang, X.H., Qu, Y.N., Shen, H.Z.
Funding Organization(s): Ministry of Science and Technology (MoST, China)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.82 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 25JX

This is version 1.0 of the entry. See complete history.

Literature

Structural insights into the transport and gating mechanisms of the plant high-affinity K+ transporter AtHAK5

Wang, C., Wang, X., Qu, Y., Shen, H.

(2026) Mol Plant

DOI: https://doi.org/10.1016/j.molp.2026.08.017

Macromolecule Content

Total Structure Weight: 179.82 kDa
Atom Count: 10,611
Modeled Residue Count: 1,328
Deposited Residue Count: 1,596
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Potassium transporter 5	A, B	798	Arabidopsis thaliana	Mutation(s): 0 Gene Names: POT5, HAK5, At4g13420, T9E8.160
UniProt
Find proteins for Q9M7K4 (Arabidopsis thaliana) Explore Q9M7K4 Go to UniProtKB: Q9M7K4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9M7K4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ADP (Subject of Investigation/LOI) Query on ADP Download:Ideal Coordinates CCD File SDF format, chain E [auth B] SDF format, chain C [auth A] MOL2 format, chain E [auth B] MOL2 format, chain C [auth A] mmCIF format, chain E [auth B] mmCIF format, chain C [auth A]	C [auth A], E [auth B]	ADENOSINE-5'-DIPHOSPHATE C₁₀ H₁₅ N₅ O₁₀ P₂ XTWYTFMLZFPYCI-KQYNXXCUSA-N		Interactions Focus chain C [auth A] Focus chain E [auth B] Interactions & Density Focus chain C [auth A] Focus chain E [auth B]
K (Subject of Investigation/LOI) Query on K Download:Ideal Coordinates CCD File SDF format, chain F [auth B] SDF format, chain D [auth A] MOL2 format, chain F [auth B] MOL2 format, chain D [auth A] mmCIF format, chain F [auth B] mmCIF format, chain D [auth A]	D [auth A], F [auth B]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Focus chain F [auth B] Interactions & Density Focus chain D [auth A] Focus chain F [auth B]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.82 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.17.1_3660
RECONSTRUCTION	PHENIX

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-09-02

Deposition Author(s):

Funding Organization	Location	Grant Number
Ministry of Science and Technology (MoST, China)	China	--

Revision History (Full details and data files)

Version 1.0: 2026-09-02
Type: Initial release

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.