9P9E | pdb_00009p9e

Active substate 3 of the GluA4 homotetramer.

PDB DOI: https://doi.org/10.2210/pdb9P9E/pdb
EM Map EMD-71408: EMDB EMDataResource

Classification: MEMBRANE PROTEIN
Organism(s): Rattus norvegicus, Mus musculus
Expression System: Mus musculus, Homo sapiens
Mutation(s): No

Deposited: 2025-06-24 Released: 2026-01-28
Deposition Author(s): Hale, W.D., Huganir, R.L., Twomey, E.C.
Funding Organization(s): National Institutes of Health/National Institute of Mental Health (NIH/NIMH), National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.82 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

Conformational Plasticity Tunes the GluA4 Channel Gate

Hale, W.D., Huganir, R.L., Twomey, E.C.

To be published.

Macromolecule Content

Total Structure Weight: 474.97 kDa
Atom Count: 18,100
Modeled Residue Count: 2,304
Deposited Residue Count: 4,220
Unique protein chains: 2

Macromolecules

Find similar proteins by:

| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Isoform 2 of Glutamate receptor 4	A, B, C, D	846	Rattus norvegicus	Mutation(s): 0 Gene Names: Gria4, Glur4
UniProt
Find proteins for P19493 (Rattus norvegicus) Explore P19493 Go to UniProtKB: P19493
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P19493
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Voltage-dependent calcium channel gamma-2 subunit	E [auth H], F, G, H [auth E]	209	Mus musculus	Mutation(s): 0 Gene Names: Cacng2, Stg
UniProt & NIH Common Fund Data Resources
Find proteins for O88602 (Mus musculus) Explore O88602 Go to UniProtKB: O88602
IMPC: MGI:1316660
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O88602
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CYZ Query on CYZ Download:Ideal Coordinates CCD File SDF format, chain J [auth A] SDF format, chain L [auth B] SDF format, chain M [auth B] SDF format, chain P [auth D] MOL2 format, chain J [auth A] MOL2 format, chain L [auth B] MOL2 format, chain M [auth B] MOL2 format, chain P [auth D] mmCIF format, chain J [auth A] mmCIF format, chain L [auth B] mmCIF format, chain M [auth B] mmCIF format, chain P [auth D]	J [auth A], L [auth B], M [auth B], P [auth D]	CYCLOTHIAZIDE C₁₄ H₁₆ Cl N₃ O₄ S₂ BOCUKUHCLICSIY-KSCJFIISSA-N		Interactions Focus chain J [auth A] Focus chain L [auth B] Focus chain M [auth B] Focus chain P [auth D] Interactions & Density Focus chain J [auth A] Focus chain L [auth B] Focus chain M [auth B] Focus chain P [auth D]
GLU Query on GLU Download:Ideal Coordinates CCD File SDF format, chain I [auth A] SDF format, chain K [auth B] SDF format, chain N [auth C] SDF format, chain O [auth D] MOL2 format, chain I [auth A] MOL2 format, chain K [auth B] MOL2 format, chain N [auth C] MOL2 format, chain O [auth D] mmCIF format, chain I [auth A] mmCIF format, chain K [auth B] mmCIF format, chain N [auth C] mmCIF format, chain O [auth D]	I [auth A], K [auth B], N [auth C], O [auth D]	GLUTAMIC ACID C₅ H₉ N O₄ WHUUTDBJXJRKMK-VKHMYHEASA-N		Interactions Focus chain I [auth A] Focus chain K [auth B] Focus chain N [auth C] Focus chain O [auth D] Interactions & Density Focus chain I [auth A] Focus chain K [auth B] Focus chain N [auth C] Focus chain O [auth D]

Binding Affinity Annotations
ID	Source	Binding Affinity
CYZ	BindingDB: 9P9E	EC50: 3800 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.82 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.2_5419
RECONSTRUCTION	cryoSPARC

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-01-28

Deposition Author(s):

Hale, W.D.

Huganir, R.L.

Twomey, E.C.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of Mental Health (NIH/NIMH)	United States	K99MH132811
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)	United States	R37NS036715
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R35GM154904