1M5E

X-RAY STRUCTURE OF THE GLUR2 LIGAND BINDING CORE (S1S2J) IN COMPLEX WITH ACPA AT 1.46 A RESOLUTION

Structural Biology Knowledgebase: 1M5E SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.46 Å
  • R-Value Free: 0.216
  • R-Value Work: 0.202

Literature

Macromolecules
Sequence Display for 1M5E

Classification: MEMBRANE PROTEIN

Total Structure Weight: 88890.25

Macromolecule Entities
Molecule Chains Length Organism Details
Glutamate receptor 2 A, B, C 263 Rattus norvegicus Fragment: GluR2-flop ligand binding core (S1S2J)
Gene Name(s): Gria2 Glur2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
AM1
Query on AM1

A, B, C (S)-2-AMINO-3-(3-CARBOXY-5-METHYLISOXAZOL- 4-YL)PROPIONIC ACID
ACPA (Synonym)
C8 H10 N2 O5
JDNMYUBSFDGCSX-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, B, C ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACT
Query on ACT

B ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
AM1 EC50: 100 - 1600 nM (88 - 91) BindingDB

IC50: 20.1 nM  BindingMOAD
IC50: 20.1 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.46 Å
  • R-Value Free: 0.216
  • R-Value Work: 0.202
  • Space Group: P 21 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 114.04 α = 90.00
b = 163.16 β = 90.00
c = 46.77 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-07-09
  • Released Date: 2002-09-18
  • Deposition author(s): Hogner, A., Kastrup, J.S., Jin, R., Liljefors, T., Mayer, M.L., Egebjerg, J., Larsen, I.K., Gouaux, E.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4