1MQI

Crystal Structure of the GluR2 Ligand Binding Core (S1S2J) in Complex with Fluoro-Willardiine at 1.35 Angstroms Resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.35 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.200 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structural basis for partial agonist action at ionotropic glutamate receptors

Jin, R.Banke, T.G.Mayer, M.L.Traynelis, S.F.Gouaux, E.

(2003) Nat Neurosci 6: 803-810

  • DOI: 10.1038/nn1091
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • An unresolved problem in understanding neurotransmitter receptor function concerns the mechanism(s) by which full and partial agonists elicit different amplitude responses at equal receptor occupancy. The widely held view of 'partial agonism' posits ...

    An unresolved problem in understanding neurotransmitter receptor function concerns the mechanism(s) by which full and partial agonists elicit different amplitude responses at equal receptor occupancy. The widely held view of 'partial agonism' posits that resting and active states of the receptor are in equilibrium, and partial agonists simply do not shift the equilibrium toward the active state as efficaciously as full agonists. Here we report findings from crystallographic and electrophysiological studies of the mechanism of activation of an AMPA-subtype glutamate receptor ion channel. In these experiments, we used 5-substituted willardiines, a series of partial agonists that differ by only a single atom. Our results show that the GluR2 ligand-binding core can adopt a range of ligand-dependent conformational states, which in turn control the open probability of discrete subconductance states of the intact ion channel. Our findings thus provide a structure-based model of partial agonism.


    Related Citations: 
    • Mechanisms for activation and antagonism of an AMPA-sensitive glutamate receptor: Crystal structures of the GluR2 ligand binding core
      Armstrong, N., Gouaux, E.
      (2000) Neuron 28: 165

    Organizational Affiliation

    Department of Biochemistry and Molecular Biophysics, Columbia University, 650 West 168 Street, New York, New York 10032, USA.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
glutamate receptor 2A263Rattus norvegicusMutation(s): 0 
Gene Names: GluR-2 or GluR-B
Find proteins for P19491 (Rattus norvegicus)
Explore P19491 
Go to UniProtKB:  P19491
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
FWD
Query on FWD

Download CCD File 
A
2-AMINO-3-(5-FLUORO-2,4-DIOXO-3,4-DIHYDRO-2H-PYRIMIDIN-1-YL)-PROPIONIC ACID
C7 H8 F N3 O4
DBWPFHJYSTVBCZ-BYPYZUCNSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
FWDIC50 :  23.530000686645508   nM  PDBBind
FWDKi:  25   nM  BindingDB
FWDEC50:  20900   nM  BindingDB
FWDIC50:  23.530000686645508   nM  Binding MOAD
FWDKi:  10000   nM  BindingDB
FWDKi:  123   nM  BindingDB
FWDEC50:  463   nM  BindingDB
FWDEC50:  11900   nM  BindingDB
FWDKi:  179   nM  BindingDB
FWDKi:  15   nM  BindingDB
FWDKi:  70   nM  BindingDB
FWDKi:  18   nM  BindingDB
FWDEC50:  460   nM  BindingDB
FWDEC50:  380   nM  BindingDB
FWDEC50:  382   nM  BindingDB
FWDKi:  4   nM  BindingDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.35 Å
  • R-Value Free: 0.218 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.200 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 63.913α = 90
b = 91.431β = 90
c = 48.286γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing
CNSrefinement

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-08-05
    Type: Initial release
  • Version 1.1: 2008-04-28
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-08-02
    Changes: Refinement description, Source and taxonomy