2V6Q | pdb_00002v6q

Crystal Structure of a BHRF-1 : Bim BH3 complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 
    0.249 (Depositor), 0.242 (DCC) 
  • R-Value Work: 
    0.206 (Depositor), 0.202 (DCC) 
  • R-Value Observed: 
    0.208 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 2V6Q

This is version 1.3 of the entry. See complete history

Literature

Structural Basis for Apoptosis Inhibition by Epstein-Barr Virus Bhrf1.

Kvansakul, M.Wei, A.H.Fletcher, J.I.Willis, S.N.Chen, L.Roberts, A.W.Huang, D.C.Colman, P.M.

(2010) PLoS Pathog 6: 1236

  • DOI: https://doi.org/10.1371/journal.ppat.1001236
  • Primary Citation Related Structures: 
    2V6Q, 2WH6, 2XPX

  • PubMed Abstract: 

    Epstein-Barr virus (EBV) is associated with human malignancies, especially those affecting the B cell compartment such as Burkitt lymphoma. The virally encoded homolog of the mammalian pro-survival protein Bcl-2, BHRF1 contributes to viral infectivity and lymphomagenesis. In addition to the pro-apoptotic BH3-only protein Bim, its key target in lymphoid cells, BHRF1 also binds a selective sub-set of pro-apoptotic proteins (Bid, Puma, Bak) expressed by host cells. A consequence of BHRF1 expression is marked resistance to a range of cytotoxic agents and in particular, we show that its expression renders a mouse model of Burkitt lymphoma untreatable. As current small organic antagonists of Bcl-2 do not target BHRF1, the structures of it in complex with Bim or Bak shown here will be useful to guide efforts to target BHRF1 in EBV-associated malignancies, which are usually associated with poor clinical outcomes.


  • Organizational Affiliation
    • The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, Australia.

Macromolecule Content 

  • Total Structure Weight: 23.52 kDa 
  • Atom Count: 1,473 
  • Modeled Residue Count: 179 
  • Deposited Residue Count: 199 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
BHRF1 PROTEIN173human gammaherpesvirus 4Mutation(s): 0 
UniProt
Find proteins for P0C736 (Epstein-Barr virus (strain GD1))
Explore P0C736 
Go to UniProtKB:  P0C736
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0C736
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
BCL-2-LIKE PROTEIN 1126Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for O43521 (Homo sapiens)
Explore O43521 
Go to UniProtKB:  O43521
PHAROS:  O43521
GTEx:  ENSG00000153094 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO43521
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free:  0.249 (Depositor), 0.242 (DCC) 
  • R-Value Work:  0.206 (Depositor), 0.202 (DCC) 
  • R-Value Observed: 0.208 (Depositor) 
Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 62.736α = 90
b = 62.736β = 90
c = 92.523γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
HKL2Mapphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2008-08-19
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2024-05-08
    Changes: Data collection, Database references, Derived calculations, Other, Refinement description