2Z3R

Crystal structure of the IL-15/IL-15Ra complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.205 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal structure of the IL-15-IL-15Ralpha complex, a cytokine-receptor unit presented in trans

Chirifu, M.Hayashi, C.Nakamura, T.Toma, S.Shuto, T.Kai, H.Yamagata, Y.Davis, S.J.Ikemizu, S.

(2007) Nat.Immunol. 8: 1001-1007

  • DOI: 10.1038/ni1492
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Interleukin 15 (IL-15) and IL-2, which promote the survival of memory CD8(+) T cells and regulatory T cells, respectively, bind receptor complexes that share beta- and gamma-signaling subunits. Receptor specificity is provided by unique, nonsignaling ...

    Interleukin 15 (IL-15) and IL-2, which promote the survival of memory CD8(+) T cells and regulatory T cells, respectively, bind receptor complexes that share beta- and gamma-signaling subunits. Receptor specificity is provided by unique, nonsignaling alpha-subunits. Whereas IL-2 receptor-alpha (IL-2Ralpha) is expressed together in cis with the beta- and gamma-subunits on T cells and B cells, IL-15Ralpha is expressed in trans on antigen-presenting cells. Here we present a 1.85-A crystal structure of the human IL-15-IL-15Ralpha complex. The structure provides insight into the molecular basis of the specificity of cytokine recognition and emphasizes the importance of water in generating this very high-affinity complex. Despite very low IL-15-IL-2 sequence homology and distinct receptor architecture, the topologies of the IL-15-IL-15Ralpha and IL-2-IL-2Ralpha complexes are very similar. Our data raise the possibility that IL-2, like IL-15, might be capable of being presented in trans in the context of its unique receptor alpha-chain.


    Organizational Affiliation

    Graduate School of Pharmaceutical Sciences, Kumamoto University, 5-1 Oe-honmachi, Kumamoto 862-0973, Japan.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Interleukin-15
A, C, E, G, I, K, M, O
119Homo sapiensMutation(s): 0 
Gene Names: IL15
Find proteins for P40933 (Homo sapiens)
Go to Gene View: IL15
Go to UniProtKB:  P40933
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Interleukin-15 receptor alpha chain
B, D, F, H, J, L, N, P
107Homo sapiensMutation(s): 0 
Gene Names: IL15RA
Find proteins for Q13261 (Homo sapiens)
Go to Gene View: IL15RA
Go to UniProtKB:  Q13261
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
A, O
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.205 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 81.800α = 90.00
b = 127.035β = 90.00
c = 191.331γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
COMOphasing
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2007-09-04
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Non-polymer description, Version format compliance