3C31

Crystal structure of GluR5 ligand-binding core in complex with lithium at 1.49 Angstrom resolution

Structural Biology Knowledgebase: 3C31 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.49 Å
  • R-Value Free: 0.190
  • R-Value Work: 0.165

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3C31

Classification: MEMBRANE PROTEIN

Total Structure Weight: 59554.11

Macromolecule Entities
Molecule Chains Length Organism Details
GLUTAMATE RECEPTOR, IONOTROPIC KAINATE 1 A, B 258 Rattus norvegicus Fragment: Residues 446-821
Gene Name(s): Grik1 Glur5

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
KAI
Query on KAI

A, B 3-(CARBOXYMETHYL)-4-ISOPROPENYLPROLINE
KAINATE (Synonym)
C10 H15 N O4
VLSMHEGGTFMBBZ-OOZYFLPDSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A, B CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
LI
Query on LI

A, B LITHIUM ION
Li
HBBGRARXTFLTSG-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
KAI EC50: 700 - 37000 nM (88 - 97) BindingDB
Kd: 39 nM (88) BindingDB
Ki: 3.7 - 177 nM (86 - 97) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.49 Å
  • R-Value Free: 0.190
  • R-Value Work: 0.165
  • Space Group: P 41 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 70.53 α = 90.00
b = 70.53 β = 90.00
c = 234.13 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-01-27
  • Released Date: 2008-06-17
  • Deposition author(s): Mayer, M.L.

Revision History

  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4