2WJW | pdb_00002wjw

Crystal structure of the human ionotropic glutamate receptor GluR2 ATD region at 1.8 A resolution

• PDB DOI: https://doi.org/10.2210/pdb2WJW/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2009-06-01 Released: 2009-08-18 
• Deposition Author(s): Clayton, A., Siebold, C., Gilbert, R.J.C., Sutton, G.C., Harlos, K., McIlhinney, R.A.J., Jones, E.Y., Aricescu, A.R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.217 (Depositor), 0.216 (DCC) 
• R-Value Work: 
  0.181 (Depositor), 0.183 (DCC) 
• R-Value Observed: 
  0.183 (Depositor) 

Literature

Crystal Structure of the Glur2 Amino-Terminal Domain Provides Insights Into the Architecture and Assembly of Ionotropic Glutamate Receptors.

Clayton, A., Siebold, C., Gilbert, R.J.C., Sutton, G.C., Harlos, K., Mcilhinney, R.A.J., Jones, E.Y., Aricescu, A.R.

(2009) J Mol Biology 392: 1125

• PubMed: 19651138 
• DOI: https://doi.org/10.1016/j.jmb.2009.07.082
• Primary Citation of Related Structures:  
  2WJW, 2WJX


• PubMed Abstract: 
  

  Ionotropic glutamate receptors are functionally diverse but have a common architecture, including the 400-residue amino-terminal domain (ATD). We report a 1.8-A resolution crystal structure of human GluR2-ATD. This dimeric structure provides a mechanism for how the ATDs can drive receptor assembly and subtype-restricted composition. Lattice contacts in a 4.1-A resolution crystal form reveal a tetrameric (dimer-dimer) arrangement consistent with previous cellular and cryo-electron microscopic data for full-length AMPA receptors.

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Organizational Affiliation: 

Division of Structural Biology, Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford, UK.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 44.19 kDa 
• Atom Count: 3,294 
• Modelled Residue Count: 368 
• Deposited Residue Count: 388 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GLUTAMATE RECEPTOR 2	A	388	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P42262 (Homo sapiens) Explore P42262  Go to UniProtKB:  P42262
PHAROS:  P42262 GTEx:  ENSG00000120251
Glycosylation
Glycosylation Sites: 1		Go to GlyGen: P42262-1

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	B [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
SO4	D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
ACT	E [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M
CL	C [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.217 (Depositor), 0.216 (DCC) 
• R-Value Work:  0.181 (Depositor), 0.183 (DCC) 
• R-Value Observed: 0.183 (Depositor) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.977	α = 90
b = 122.455	β = 90
c = 138.852	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
autoSHARP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-08-18 
Deposition Author(s): Clayton, A., Siebold, C., Gilbert, R.J.C., Sutton, G.C., Harlos, K., McIlhinney, R.A.J., Jones, E.Y., Aricescu, A.R.

Revision History  

• Version 1.0: 2009-08-18
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Other, Structure summary
• Version 1.4: 2024-10-16
  Changes: Data collection, Database references, Structure summary