4U2Q

Full-length AMPA subtype ionotropic glutamate receptor GluA2 in complex with partial agonist kainate

• PDB DOI: https://doi.org/10.2210/pdb4U2Q/pdb

• Classification: Transport protein, Membrane protein
• Organism(s): Rattus norvegicus
• Expression System: Homo sapiens
• Mutation(s): No 
• Membrane Protein: Yes  OPMPDBTMMemProtMDmpstruc


• Deposited: 2014-07-17 Released: 2014-08-20 
• Deposition Author(s): Duerr, K.L., Chen, L., Gouaux, E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.52 Å
• R-Value Free: 0.318 
• R-Value Work: 0.269 
• R-Value Observed: 0.271 

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 371.06 kDa 
• Atom Count: 22,448 
• Modelled Residue Count: 2,960 
• Deposited Residue Count: 3,296 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glutamate receptor 2	A, B, C, D	824	Rattus norvegicus	Mutation(s): 0  Gene Names: Gria2, Glur2 Membrane Entity: Yes
UniProt
Find proteins for P19491 (Rattus norvegicus) Explore P19491  Go to UniProtKB:  P19491

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	F [auth A], H [auth B], J [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
KAI	E [auth A], G [auth B], I [auth C], K [auth D]	3-(CARBOXYMETHYL)-4-ISOPROPENYLPROLINE C10 H15 N O4 VLSMHEGGTFMBBZ-OOZYFLPDSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
KAI	BindingDB:  4U2Q	Ki: min: 3690, max: 1.22e+4 (nM) from 4 assay(s)
		EC50: min: 1.06e+4, max: 3.80e+5 (nM) from 2 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.52 Å
• R-Value Free: 0.318 
• R-Value Work: 0.269 
• R-Value Observed: 0.271 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 104.94	α = 90
b = 148.65	β = 90
c = 337.06	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
PDB_EXTRACT	data extraction
PHASER	phasing
Aimless	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-08-20 
Deposition Author(s): Duerr, K.L., Chen, L., Gouaux, E.

Revision History  

• Version 1.0: 2014-08-20
  Type: Initial release
  
• Version 1.1: 2014-10-01
  Changes: Database references
• Version 1.2: 2017-11-22
  Changes: Derived calculations, Other, Refinement description, Source and taxonomy, Structure summary
• Version 1.3: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Refinement description, Structure summary
• Version 1.4: 2023-12-27
  Changes: Data collection, Database references, Structure summary