3QD6

Crystal structure of the CD40 and CD154 (CD40L) complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.298
  • R-Value Work: 0.245

Literature

Macromolecules
Sequence Display for 3QD6

Classification: CYTOKINE / CYTOKINE RECEPTOR

Total Structure Weight: 176015.16

Macromolecule Entities
Molecule Chains Length Organism Details
CD40 ligand A, B, C..., D, E, FA, B, C, D, E, F 149 Homo sapiens Fragment: secreted form, soluble form
Gene Name(s): CD40LG Gene View CD40L TNFSF5 TRAP
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Tumor necrosis factor receptor superfamily member 5 R, S, T, U 177 Homo sapiens Fragment: extracellular domain
Gene Name(s): CD40 Gene View TNFRSF5
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, C, D, E, F N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.298
  • R-Value Work: 0.245
  • Space Group: P 65

Unit Cell:

Length (Å) Angle (°)
a = 133.21 α = 90.00
b = 133.21 β = 90.00
c = 211.15 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-01-18
  • Released Date: 2011-02-02
  • Deposition author(s): Lee, J.-O., Kim, Y.J., Song, D.H., Kim, H.M., Park, B.S.

Revision History

  • 2011-07-13
    Type: Version format compliance
  • 2012-03-21
    Type: Database references