3BPO

Crystal structure of the IL13-IL4R-IL13Ra ternary complex

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.312 
  • R-Value Work: 0.253 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history. 

Literature

Molecular and Structural Basis of Cytokine Receptor Pleiotropy in the Interleukin-4/13 System.

Laporte, S.L., Juo, Z.S., Vaclavikova, J., Colf, L.A., Qi, X., Heller, N.M., Keegan, A.D., Garcia, K.C.

(2008) Cell 132: 259-272

  • DOI: 10.1016/j.cell.2007.12.030
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    • Interleukin-4 and Interleukin-13 are cytokines critical to the development of T cell-mediated humoral immune responses, which are associated with allergy and asthma, and exert their actions through three different combinations of shared receptors. He ...

    Interleukin-4 and Interleukin-13 are cytokines critical to the development of T cell-mediated humoral immune responses, which are associated with allergy and asthma, and exert their actions through three different combinations of shared receptors. Here we present the crystal structures of the complete set of type I (IL-4R alpha/gamma(c)/IL-4) and type II (IL-4R alpha/IL-13R alpha1/IL-4, IL-4R alpha/IL-13R alpha1/IL-13) ternary signaling complexes. The type I complex reveals a structural basis for gamma(c)'s ability to recognize six different gamma(c)-cytokines. The two type II complexes utilize an unusual top-mounted Ig-like domain on IL-13R alpha1 for a novel mode of cytokine engagement that contributes to a reversal in the IL-4 versus IL-13 ternary complex assembly sequences, which are mediated through substantially different recognition chemistries. We also show that the type II receptor heterodimer signals with different potencies in response to IL-4 versus IL-13 and suggest that the extracellular cytokine-receptor interactions are modulating intracellular membrane-proximal signaling events.

    Organizational Affiliation: 

    Howard Hughes Medical Institute, Department of Molecular and Cellular Physiology, Stanford University School of Medicine, Stanford, CA 94305, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Interleukin 13
A
127Homo sapiensMutation(s): 0 
Gene Names: IL13 (NC30)
Find proteins for P35225 (Homo sapiens)
Go to Gene View: IL13
Go to UniProtKB:  P35225
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Interleukin-4 receptor alpha chain
B
205Homo sapiensMutation(s): 4 
Gene Names: IL4R (IL4RA)
Find proteins for P24394 (Homo sapiens)
Go to Gene View: IL4R
Go to UniProtKB:  P24394
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Interleukin-13 receptor alpha-1 chain
C
314Homo sapiensMutation(s): 0 
Gene Names: IL13RA1 (IL13R, IL13RA)
Find proteins for P78552 (Homo sapiens)
Go to Gene View: IL13RA1
Go to UniProtKB:  P78552
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG
Download SDF File 
Download CCD File 
B
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.312 
  • R-Value Work: 0.253 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 211.510α = 90.00
b = 58.169β = 100.51
c = 64.236γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
PHASERphasing
REFMACrefinement
SCALEPACKdata scaling
HKL-2000data collection

Structure Validation

View Full Validation Report or Ramachandran Plots


View more in-depth experimental data

Entry History 

Deposition Data

  • Deposited Date: 2007-12-18 
  • Released Date: 2008-02-05 
  • Deposition Author(s): Garcia, K.C.

Revision History 

  • Version 1.0: 2008-02-05
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Advisory, Version format compliance