3O4O

Crystal structure of an Interleukin-1 receptor complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.3 Å
  • R-Value Free: 0.289 
  • R-Value Work: 0.252 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural insights into the assembly and activation of IL-1beta with its receptors

Wang, D.L.Zhang, S.Y.Li, L.Liu, X.Mei, K.R.Wang, X.Q.

(2010) Nat.Immunol. 11: 905-911

  • DOI: 10.1038/ni.1925

  • PubMed Abstract: 
  • Interleukin 1β (IL-1β) is a key orchestrator of inflammation and host defense that exerts its effects through IL-1 receptor type I (IL-1RI) and IL-1 receptor accessory protein (IL-1RAcP). How IL-1RAcP is recruited by IL-1β-IL-1RI to form the signalin ...

    Interleukin 1β (IL-1β) is a key orchestrator of inflammation and host defense that exerts its effects through IL-1 receptor type I (IL-1RI) and IL-1 receptor accessory protein (IL-1RAcP). How IL-1RAcP is recruited by IL-1β-IL-1RI to form the signaling-competent complex remains elusive. Here we present the crystal structure of IL-1β bound to IL-1 receptor type II (IL-1RII) and IL-1RAcP. IL-1β-IL-1RII generated a composite binding surface to recruit IL-1RAcP. Biochemical analysis demonstrated that IL-1β-IL-1RI and IL-1β-IL-1RII interacted similarly with IL-1RAcP. It also showed the importance of two loops of IL-1 receptor antagonist (IL-1Ra) in determining its antagonism. Our results provide a structural basis for assembly and activation of the IL-1 receptor and offer a general cytokine-receptor architecture that governs the IL-1 family of cytokines.


    Organizational Affiliation

    Center for Structural Biology, School of Life Sciences, Ministry of Education Key Laboratory of Bioinformatics, Tsinghua University, Beijing, China.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Interleukin-1 beta
A
158Homo sapiensMutation(s): 0 
Gene Names: IL1B (IL1F2)
Find proteins for P01584 (Homo sapiens)
Go to Gene View: IL1B
Go to UniProtKB:  P01584
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Interleukin-1 receptor type 2
C
339Homo sapiensMutation(s): 0 
Gene Names: IL1R2 (IL1RB)
Find proteins for P27930 (Homo sapiens)
Go to Gene View: IL1R2
Go to UniProtKB:  P27930
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Interleukin-1 receptor accessory protein
B
339Homo sapiensMutation(s): 0 
Gene Names: IL1RAP (C3orf13, IL1R3)
Find proteins for Q9NPH3 (Homo sapiens)
Go to Gene View: IL1RAP
Go to UniProtKB:  Q9NPH3
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download SDF File 
Download CCD File 
B, C
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.3 Å
  • R-Value Free: 0.289 
  • R-Value Work: 0.252 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 44.830α = 90.00
b = 177.470β = 90.00
c = 180.660γ = 90.00
Software Package:
Software NamePurpose
SCALAdata scaling
PHASESphasing
MOSFLMdata reduction
MAR345dtbdata collection
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-09-01
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance