3MI8

The structure of TL1A-DCR3 COMPLEX


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.951 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.232 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Decoy Strategies: The Structure of TL1A:DcR3 Complex.

Zhan, C.Patskovsky, Y.Yan, Q.Li, Z.Ramagopal, U.Cheng, H.Brenowitz, M.Hui, X.Nathenson, S.G.Almo, S.C.

(2011) Structure 19: 162-171

  • DOI: 10.1016/j.str.2010.12.004
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Decoy Receptor 3 (DcR3), a secreted member of the Tumor Necrosis Factor (TNF) receptor superfamily, neutralizes three different TNF ligands: FasL, LIGHT, and TL1A. Each of these ligands engages unique signaling receptors which direct distinct and cri ...

    Decoy Receptor 3 (DcR3), a secreted member of the Tumor Necrosis Factor (TNF) receptor superfamily, neutralizes three different TNF ligands: FasL, LIGHT, and TL1A. Each of these ligands engages unique signaling receptors which direct distinct and critical immune responses. We report the crystal structures of the unliganded DcR3 ectodomain and its complex with TL1A, as well as complementary mutagenesis and biochemical studies. These analyses demonstrate that DcR3 interacts with invariant backbone and side-chain atoms in the membrane-proximal half of TL1A which supports recognition of its three distinct TNF ligands. Additional features serve as antideterminants that preclude interaction with other members of the TNF superfamily. This mode of interaction is unique among characterized TNF:TNFR family members and provides a mechanistic basis for the broadened specificity required to support the decoy function of DcR3, as well as for the rational manipulation of specificity and affinity of DcR3 and its ligands.


    Organizational Affiliation

    Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY 10461, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 15, SECRETED FORM
A
184Homo sapiensMutation(s): 1 
Gene Names: TNFSF15 (TL1, VEGI)
Find proteins for O95150 (Homo sapiens)
Go to Gene View: TNFSF15
Go to UniProtKB:  O95150
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Tumor necrosis factor receptor superfamily member 6B
D
176Homo sapiensMutation(s): 0 
Gene Names: TNFRSF6B (DCR3, TR6)
Find proteins for O95407 (Homo sapiens)
Go to Gene View: TNFRSF6B
Go to UniProtKB:  O95407
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.951 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.232 
  • Space Group: P 43 3 2
Unit Cell:
Length (Å)Angle (°)
a = 161.080α = 90.00
b = 161.080β = 90.00
c = 161.080γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data scaling
HKL-2000data reduction
CBASSdata collection
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-02-23
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance