7WM2 | pdb_00007wm2

Cryo-EM structure of AKT1

PDB DOI: https://doi.org/10.2210/pdb7WM2/pdb
EM Map EMD-32598: EMDB EMDataResource

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

Deposited: 2022-01-14 Released: 2023-01-25
Deposition Author(s): Dongliang, L., Zijie, Z., Yannan, Q., Yuyue, T., Huaizong, S.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.69 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

AtKC1 inhibits AKT1 activation via its amino-terminal inhibitory domain.

Zheng, Z., Qu, Y., Chen, J., Tang, Y., Liu, D., Huang, Z., Shen, H.

(2025) Plant Commun : 101288-101288

PubMed: 39980197 Search on PubMed
DOI: https://doi.org/10.1016/j.xplc.2025.101288
Primary Citation of Related Structures:
7WM1, 7WM2, 9IS8

Organizational Affiliation

Fudan University, Shanghai 310024, China; Zhejiang Key Laboratory of Structural Biology, School of Life Sciences, Westlake University, Hangzhou, Zhejiang 310024, China; Westlake Laboratory of Life Sciences and Biomedicine, Hangzhou, Zhejiang 310024, China; Institute of Biology, Westlake Institute for Advanced Study, Hangzhou, Zhejiang, China.

Macromolecule Content

Total Structure Weight: 407.93 kDa
Atom Count: 15,485
Modeled Residue Count: 1,878
Deposited Residue Count: 3,580
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Potassium channel AKT1	A, B, C, D	895	Arabidopsis thaliana	Mutation(s): 0 Gene Names: AKT1, At2g26650, F18A8.2 Membrane Entity: Yes
UniProt
Find proteins for Q38998 (Arabidopsis thaliana) Explore Q38998 Go to UniProtKB: Q38998
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q38998
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
POV (Subject of Investigation/LOI) Query on POV Download Ideal Coordinates CCD File SDF format, chain K [auth D] SDF format, chain J [auth C] SDF format, chain I [auth B] SDF format, chain E [auth A] MOL2 format, chain K [auth D] MOL2 format, chain J [auth C] MOL2 format, chain I [auth B] MOL2 format, chain E [auth A] mmCIF format, chain K [auth D] mmCIF format, chain J [auth C] mmCIF format, chain I [auth B] mmCIF format, chain E [auth A]	E [auth A], I [auth B], J [auth C], K [auth D]	(2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate C₄₂ H₈₂ N O₈ P WTJKGGKOPKCXLL-PFDVCBLKSA-N		Interactions Focus chain E [auth A] Focus chain I [auth B] Focus chain J [auth C] Focus chain K [auth D] Interactions & Density Focus chain E [auth A] Focus chain I [auth B] Focus chain J [auth C] Focus chain K [auth D]
K Query on K Download Ideal Coordinates CCD File SDF format, chain H [auth A] SDF format, chain G [auth A] SDF format, chain F [auth A] MOL2 format, chain H [auth A] MOL2 format, chain G [auth A] MOL2 format, chain F [auth A] mmCIF format, chain H [auth A] mmCIF format, chain G [auth A] mmCIF format, chain F [auth A]	F [auth A], G [auth A], H [auth A]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain G [auth A] Focus chain H [auth A] Interactions & Density Focus chain F [auth A] Focus chain G [auth A] Focus chain H [auth A]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.69 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2023-01-25

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History (Full details and data files)

Version 1.0: 2023-01-25
Type: Initial release
Version 1.1: 2024-06-26
Changes: Data collection
Version 1.2: 2025-05-21
Changes: Data collection, Database references, Structure summary
Version 1.3: 2025-06-18
Changes: Data collection