2F35

Crystal Structure of the GluR5 Ligand Binding Core with UBP302 At 1.87 Angstroms Resolution

Structural Biology Knowledgebase: 2F35 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.87 Å
  • R-Value Free: 0.220
  • R-Value Work: 0.191

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2F35

Classification: MEMBRANE PROTEIN

Total Structure Weight: 59637.46

Macromolecule Entities
Molecule Chains Length Organism Details
GLUTAMATE RECEPTOR, IONOTROPIC KAINATE 1 A, B 258 Rattus norvegicus Fragment: GluR5 ligand binding core (sequence database 446-559 and 682-821)
Mutation: E258S
Gene Name(s): Grik1 Glur5

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
1PE
Query on 1PE

A, B PENTAETHYLENE GLYCOL
PEG400 (Synonym)
C10 H22 O6
JLFNLZLINWHATN-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
CL
Query on CL

A, B CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
JSmol
UBC
Query on UBC

A, B (S)-1-(2-AMINO-2-CARBOXYETHYL)-3-(2-CARBOXYBENZYL)PYRIMIDINE- 2,4-DIONE
C15 H15 N3 O6
UUIYULWYHDSXHL-NSHDSACASA-N
Ligand Explorer
 
JSmol
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
UBC IC50: >300000 nM (88) BindingDB
Kd: 402 - 3940 nM (97) BindingDB

Kd: 3940 nM  BindingMOAD
Kd: 3940 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.87 Å
  • R-Value Free: 0.220
  • R-Value Work: 0.191
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 97.88 α = 90.00
b = 97.91 β = 90.00
c = 128.35 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-11-18
  • Released Date: 2006-04-04
  • Deposition author(s): Mayer, M.L.

Revision History

  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values
  • 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