5CIR

Crystal structure of death receptor 4 (DR4; TNFFRSF10A) bound to TRAIL (TNFSF10)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.177 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

The structure of the death receptor 4-TNF-related apoptosis-inducing ligand (DR4-TRAIL) complex.

Ramamurthy, V.Yamniuk, A.P.Lawrence, E.J.Yong, W.Schneeweis, L.A.Cheng, L.Murdock, M.Corbett, M.J.Doyle, M.L.Sheriff, S.

(2015) Acta Crystallogr F Struct Biol Commun 71: 1273-1281

  • DOI: 10.1107/S2053230X15016416

  • PubMed Abstract: 
  • The structure of death receptor 4 (DR4) in complex with TNF-related apoptosis-inducing ligand (TRAIL) has been determined at 3 Å resolution and compared with those of previously determined DR5-TRAIL complexes. Consistent with the high sequence simila ...

    The structure of death receptor 4 (DR4) in complex with TNF-related apoptosis-inducing ligand (TRAIL) has been determined at 3 Å resolution and compared with those of previously determined DR5-TRAIL complexes. Consistent with the high sequence similarity between DR4 and DR5, the overall arrangement of the DR4-TRAIL complex does not differ substantially from that of the DR5-TRAIL complex. However, subtle differences are apparent. In addition, solution interaction studies were carried out that show differences in the thermodynamics of binding DR4 or DR5 with TRAIL.


    Organizational Affiliation

    Molecular Structure and Design, Bristol-Myers Squibb R&D, PO Box 4000, Princeton, NJ 08543-4000, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Tumor necrosis factor ligand superfamily member 10
A, B, D
169Homo sapiensMutation(s): 0 
Gene Names: TNFSF10 (APO2L, TRAIL)
Find proteins for P50591 (Homo sapiens)
Go to Gene View: TNFSF10
Go to UniProtKB:  P50591
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Tumor necrosis factor receptor superfamily member 10A
E, F, G
108Homo sapiensMutation(s): 0 
Gene Names: TNFRSF10A (APO2, DR4, TRAILR1)
Find proteins for O00220 (Homo sapiens)
Go to Gene View: TNFRSF10A
Go to UniProtKB:  O00220
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
CL
Query on CL

Download SDF File 
Download CCD File 
B
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.216 
  • R-Value Work: 0.177 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 84.600α = 90.00
b = 87.600β = 90.00
c = 107.700γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data scaling
PDB_EXTRACTdata extraction
HKL-2000data reduction
BUSTER-TNTrefinement
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2015-07-13 
  • Released Date: 2017-01-18 
  • Deposition Author(s): Sheriff, S.

Revision History 

  • Version 1.0: 2017-01-18
    Type: Initial release