6DF3

Crystal structure of ternary complex of IL-24 with soluble receptors IL-22RA and IL-20RB


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Free: 0.225 
  • R-Value Work: 0.182 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal Structure of the Labile Complex of IL-24 with the Extracellular Domains of IL-22R1 and IL-20R2.

Lubkowski, J.Sonmez, C.Smirnov, S.V.Anishkin, A.Kotenko, S.V.Wlodawer, A.

(2018) J. Immunol. 201: 2082-2093

  • DOI: 10.4049/jimmunol.1800726

  • PubMed Abstract: 
  • Crystal structure of the ternary complex of human IL-24 with two receptors, IL-22R1 and IL-20R2, has been determined at 2.15 Å resolution. A crystallizable complex was created by a novel approach involving fusing the ligand with a flexible linker to ...

    Crystal structure of the ternary complex of human IL-24 with two receptors, IL-22R1 and IL-20R2, has been determined at 2.15 Å resolution. A crystallizable complex was created by a novel approach involving fusing the ligand with a flexible linker to the presumed low-affinity receptor, and coexpression of this construct in Drosophila S2 cells together with the presumed high-affinity receptor. This approach, which may be generally applicable to other multiprotein complexes with low-affinity components, was necessitated by the instability of IL-24 expressed by itself in either bacteria or insect cells. Although IL-24 expressed in Escherichia coli was unstable and precipitated almost immediately upon its refolding and purification, a small fraction of IL-24 remaining in the folded state was shown to be active in a cell-based assay. In the crystal structure presented here, we found that two cysteine residues in IL-24 do not form a predicted disulfide bond. Lack of structural restraint by disulfides, present in other related cytokines, is most likely reason for the low stability of IL-24. Although the contact area between IL-24 and IL-22R1 is larger than between the cytokine and IL-20R2, calculations show the latter interaction to be slightly more stable, suggesting that the shared receptor (IL-20R2) might be the higher-affinity receptor.


    Organizational Affiliation

    Macromolecular Crystallography Laboratory, Center for Cancer Research, National Cancer Institute, Frederick, MD 21702.,Biology Department, University of Maryland, College Park, MD 20742.,Department of Microbiology, Biochemistry and Molecular Genetics, Center for Immunity and Inflammation, Rutgers Cancer Institute of New Jersey at University Hospital, New Jersey Medical School, Rutgers University, Newark, NJ 07103; and.,Macromolecular Crystallography Laboratory, Center for Cancer Research, National Cancer Institute, Frederick, MD 21702; lubkowsj@mail.nih.gov.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Interleukin-22 receptor subunit alpha-1
L
206Homo sapiensMutation(s): 0 
Gene Names: IL22RA1 (IL22R)
Find proteins for Q8N6P7 (Homo sapiens)
Go to Gene View: IL22RA1
Go to UniProtKB:  Q8N6P7
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Interleukin-24
C
155Homo sapiensMutation(s): 3 
Gene Names: IL24 (MDA7, ST16)
Find proteins for Q13007 (Homo sapiens)
Go to Gene View: IL24
Go to UniProtKB:  Q13007
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Interleukin-20 receptor subunit beta
H
190Homo sapiensMutation(s): 1 
Gene Names: IL20RB (DIRS1)
Find proteins for Q6UXL0 (Homo sapiens)
Go to Gene View: IL20RB
Go to UniProtKB:  Q6UXL0
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download SDF File 
Download CCD File 
C
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
NAG
Query on NAG

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

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.15 Å
  • R-Value Free: 0.225 
  • R-Value Work: 0.182 
  • Space Group: P 43
Unit Cell:
Length (Å)Angle (°)
a = 77.702α = 90.00
b = 77.702β = 90.00
c = 124.785γ = 90.00
Software Package:
Software NamePurpose
HKL-3000data reduction
REFMACrefinement
HKL-3000data scaling
PHASERphasing
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-08-15
    Type: Initial release
  • Version 1.1: 2018-08-29
    Type: Data collection, Database references
  • Version 1.2: 2018-10-03
    Type: Data collection, Database references