2GFE

Crystal structure of the GluR2 A476E S673D Ligand Binding Core Mutant at 1.54 Angstroms Resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.54 Å
  • R-Value Free: 0.227 
  • R-Value Work: 0.212 
  • R-Value Observed: 0.218 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Interdomain interactions in AMPA and kainate receptors regulate affinity for glutamate.

Weston, M.C.Gertler, C.Mayer, M.L.Rosenmund, C.

(2006) J Neurosci 26: 7650-7658

  • DOI: 10.1523/JNEUROSCI.1519-06.2006
  • Primary Citation of Related Structures:  
    2GFE

  • PubMed Abstract: 
  • Ionotropic glutamate receptors perform diverse functions in the nervous system. As a result, multiple receptor subtypes have evolved with different kinetics, ion permeability, expression patterns, and regulation by second messengers. Kainate receptor ...

    Ionotropic glutamate receptors perform diverse functions in the nervous system. As a result, multiple receptor subtypes have evolved with different kinetics, ion permeability, expression patterns, and regulation by second messengers. Kainate receptors show slower recovery from desensitization and have different affinities for agonists than AMPA receptors. Based on analysis of ligand binding domain crystal structures, we identified interdomain interactions in the agonist-bound state that are conserved in kainate receptors and absent in AMPA receptors. Mutations in GluR6 designed to disrupt these contacts reduced agonist apparent affinity, speeded up receptor deactivation and increased the rate of recovery from desensitization. Conversely, introduction of mutations in GluR2 that enabled additional interdomain interactions in the agonist-bound state increased agonist apparent affinity 15-fold, and slowed both deactivation and recovery from desensitization. We conclude that interdomain interactions have evolved as a distinct mechanism that contributes to the unique kinetic properties of AMPA and kainate receptors.


    Organizational Affiliation

    Department of Neuroscience, Baylor College of Medicine, Houston, Texas 77030, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Glutamate receptor 2A, B, C262Rattus norvegicusMutation(s): 2 
Gene Names: Gria2
Find proteins for P19491 (Rattus norvegicus)
Explore P19491 
Go to UniProtKB:  P19491
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GLU
Query on GLU

Download CCD File 
A, B, C
GLUTAMIC ACID
C5 H9 N O4
WHUUTDBJXJRKMK-VKHMYHEASA-N
 Ligand Interaction
ZN
Query on ZN

Download CCD File 
A, B, C
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
GGLKi:  249   nM  BindingDB
GGLKi:  254   nM  BindingDB
GGLEC50:  19600   nM  BindingDB
GGLEC50:  20000   nM  BindingDB
GGLEC50:  2260   nM  BindingDB
GGLEC50:  14000   nM  BindingDB
GGLEC50:  17000   nM  BindingDB
GGLKi:  280   nM  BindingDB
GGLKi:  282   nM  BindingDB
GGLEC50:  140000   nM  BindingDB
GGLKi:  10000   nM  BindingDB
GGLEC50:  14700   nM  BindingDB
GGLEC50:  190000   nM  BindingDB
GGLKi:  354   nM  BindingDB
GGLEC50:  140000   nM  BindingDB
GGLKi:  500   nM  BindingDB
GGLKi:  7400   nM  BindingDB
GGLKi:  1360   nM  BindingDB
GGLEC50:  100000   nM  BindingDB
GGLEC50:  22000   nM  BindingDB
GGLKi:  336   nM  BindingDB
GGLKi:  62   nM  BindingDB
GGLEC50:  52000   nM  BindingDB
GGLEC50:  3660   nM  BindingDB
GGLKi:  940   nM  BindingDB
GGLEC50:  2190   nM  BindingDB
GGLEC50:  67000   nM  BindingDB
GGLEC50:  1300   nM  BindingDB
GGLEC50:  21200   nM  BindingDB
GGLEC50:  71000   nM  BindingDB
GGLEC50:  6200   nM  BindingDB
GGLKi:  89   nM  BindingDB
GGLEC50:  35000   nM  BindingDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.54 Å
  • R-Value Free: 0.227 
  • R-Value Work: 0.212 
  • R-Value Observed: 0.218 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 114.318α = 90
b = 163.301β = 90
c = 47.557γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
SCALEPACKdata scaling
CNSrefinement
HKL-2000data reduction
CNSphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Deposited Date: 2006-03-21 
  • Released Date: 2006-08-22 
  • Deposition Author(s): Mayer, M.L.

Revision History 

  • Version 1.0: 2006-08-22
    Type: Initial release
  • Version 1.1: 2008-05-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-08-16
    Changes: Advisory, Refinement description, Source and taxonomy