5T5W

Structure of an affinity matured lambda-IFN/IFN-lambdaR1/IL-10Rbeta receptor complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.847 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.198 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

The IFN-lambda-IFN-lambda R1-IL-10R beta Complex Reveals Structural Features Underlying Type III IFN Functional Plasticity.

Mendoza, J.L.Schneider, W.M.Hoffmann, H.H.Vercauteren, K.Jude, K.M.Xiong, A.Moraga, I.Horton, T.M.Glenn, J.S.de Jong, Y.P.Rice, C.M.Garcia, K.C.

(2017) Immunity 46: 379-392

  • DOI: 10.1016/j.immuni.2017.02.017

  • PubMed Abstract: 
  • Type III interferons (IFN-λs) signal through a heterodimeric receptor complex composed of the IFN-λR1 subunit, specific for IFN-λs, and interleukin-10Rβ (IL-10Rβ), which is shared by multiple cytokines in the IL-10 superfamily. Low affinity of IL-10R ...

    Type III interferons (IFN-λs) signal through a heterodimeric receptor complex composed of the IFN-λR1 subunit, specific for IFN-λs, and interleukin-10Rβ (IL-10Rβ), which is shared by multiple cytokines in the IL-10 superfamily. Low affinity of IL-10Rβ for cytokines has impeded efforts aimed at crystallizing cytokine-receptor complexes. We used yeast surface display to engineer a higher-affinity IFN-λ variant, H11, which enabled crystallization of the ternary complex. The structure revealed that IL-10Rβ uses a network of tyrosine residues as hydrophobic anchor points to engage IL-10 family cytokines that present complementary hydrophobic binding patches, explaining its role as both a cross-reactive but cytokine-specific receptor. H11 elicited increased anti-proliferative and antiviral activities in vitro and in vivo. In contrast, engineered higher-affinity type I IFNs did not increase antiviral potency over wild-type type I IFNs. Our findings provide insight into cytokine recognition by the IL-10R family and highlight the plasticity of type III interferon signaling and its therapeutic potential.


    Organizational Affiliation

    Department of Medicine, Division of Gastroenterology and Hepatology, Department of Microbiology and Immunology, Stanford University School of Medicine, Stanford, CA 94305, USA Stanford University School of Medicine, Stanford, CA 94305, USA.,Laboratory of Virology and Infectious Disease, The Rockefeller University, New York, NY 10065, USA.,Howard Hughes Medical Institute, Department of Molecular and Cellular Physiology and Department of Structural Biology, Stanford University School of Medicine, Stanford, CA 94305, USA. Electronic address: kcgarcia@stanford.edu.,Howard Hughes Medical Institute, Department of Molecular and Cellular Physiology and Department of Structural Biology, Stanford University School of Medicine, Stanford, CA 94305, USA.,Laboratory of Virology and Infectious Disease, The Rockefeller University, New York, NY 10065, USA; Center for the Study of Hepatitis C, Division of Gastroenterology and Hepatology, Weill Cornell Medicine, New York, NY 10065, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Interleukin-10 receptor subunit beta
A
214Homo sapiensMutation(s): 5 
Gene Names: IL10RB (CRFB4, D21S58, D21S66)
Find proteins for Q08334 (Homo sapiens)
Go to Gene View: IL10RB
Go to UniProtKB:  Q08334
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Interferon lambda receptor 1
B
218Homo sapiensMutation(s): 0 
Gene Names: IFNLR1 (IL28RA, LICR2)
Find proteins for Q8IU57 (Homo sapiens)
Go to Gene View: IFNLR1
Go to UniProtKB:  Q8IU57
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Interferon lambda-3
C
176Homo sapiensMutation(s): 4 
Gene Names: IFNL3 (IL28B, IL28C, ZCYTO22)
Find proteins for Q8IZI9 (Homo sapiens)
Go to Gene View: IFNL3
Go to UniProtKB:  Q8IZI9
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

Unit Cell:
Length (Å)Angle (°)
a = 106.790α = 90.00
b = 106.790β = 90.00
c = 129.710γ = 120.00
Software Package:
Software NamePurpose
PHENIXrefinement
XSCALEdata scaling
XDSdata reduction
PHASERphasing
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious DiseasesUnited States1U19AI109662

Revision History 

  • Version 1.0: 2017-03-29
    Type: Initial release
  • Version 1.1: 2017-04-05
    Type: Database references
  • Version 1.2: 2017-08-09
    Type: Database references
  • Version 1.3: 2017-09-13
    Type: Author supporting evidence
  • Version 1.4: 2018-08-15
    Type: Data collection, Database references