2HEV

Crystal structure of the complex between OX40L and OX40


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.41 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.208 
  • R-Value Observed: 0.212 

Starting Model: experimental
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This is version 1.5 of the entry. See complete history


Literature

The Crystal Structure of the Costimulatory OX40-OX40L Complex.

Compaan, D.M.Hymowitz, S.G.

(2006) Structure 14: 1321-1330

  • DOI: https://doi.org/10.1016/j.str.2006.06.015
  • Primary Citation of Related Structures:  
    2HEV, 2HEW, 2HEY

  • PubMed Abstract: 

    OX40 is a T cell costimulator activated by OX40L. Blockade of the OX40L-OX40 interaction has ameliorative effects in animal models of T cell pathologies. In order to better understand the interaction between OX40 and OX40L, we have determined the crystal structure of murine OX40L and of the human OX40-OX40L complex at 1.45 and 2.4 A, respectively. These structures show that OX40L is an unusually small member of the tumor necrosis factor superfamily (TNFSF). The arrangement of the OX40L protomers forming the functional trimer is atypical and differs from that of other members by a 15 degrees rotation of each protomer with respect to the trimer axis, resulting in an open assembly. Site-directed changes of the interfacial residues of OX40L suggest this interface lacks a single "hot spot" and that instead, binding energy is dispersed over at least two distinct areas. These structures demonstrate the structural plasticity of TNFSF members and their interactions with receptors.


  • Organizational Affiliation

    Department of Protein Engineering, Genentech, Incorporated, 1 DNA Way, South San Francisco, California 94080, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Tumor necrosis factor ligand superfamily member 4A [auth F]137Homo sapiensMutation(s): 2 
Gene Names: TNFSF4TXGP1
UniProt & NIH Common Fund Data Resources
Find proteins for P23510 (Homo sapiens)
Explore P23510 
Go to UniProtKB:  P23510
PHAROS:  P23510
GTEx:  ENSG00000117586 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP23510
Glycosylation
Glycosylation Sites: 1Go to GlyGen: P23510-1
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Tumor necrosis factor receptor superfamily member 4B [auth R]146Homo sapiensMutation(s): 0 
Gene Names: TNFRSF4TXGP1L
UniProt & NIH Common Fund Data Resources
Find proteins for P43489 (Homo sapiens)
Explore P43489 
Go to UniProtKB:  P43489
PHAROS:  P43489
GTEx:  ENSG00000186827 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP43489
Glycosylation
Glycosylation Sites: 1Go to GlyGen: P43489-1
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download Ideal Coordinates CCD File 
C [auth F],
D [auth R]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.41 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.208 
  • R-Value Observed: 0.212 
  • Space Group: H 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 111.903α = 90
b = 111.903β = 90
c = 233.238γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
AMoREphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2006-08-29
    Type: Initial release
  • Version 1.1: 2008-05-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Advisory, Refinement description, Version format compliance
  • Version 1.3: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Advisory, Data collection, Database references, Derived calculations, Structure summary
  • Version 1.4: 2021-10-20
    Changes: Advisory, Database references, Structure summary
  • Version 1.5: 2024-10-30
    Changes: Data collection, Refinement description, Structure summary