5KDM

Crystal structure of EBV tegument protein BNRF1 in complex with histone chaperone DAXX and histones H3.3-H4


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.234 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural basis underlying viral hijacking of a histone chaperone complex.

Huang, H.Deng, Z.Vladimirova, O.Wiedmer, A.Lu, F.Lieberman, P.M.Patel, D.J.

(2016) Nat Commun 7: 12707-12707

  • DOI: 10.1038/ncomms12707

  • PubMed Abstract: 
  • The histone H3.3 chaperone DAXX is implicated in formation of heterochromatin and transcription silencing, especially for newly infecting DNA virus genomes entering the nucleus. Epstein-Barr virus (EBV) can efficiently establish stable latent infecti ...

    The histone H3.3 chaperone DAXX is implicated in formation of heterochromatin and transcription silencing, especially for newly infecting DNA virus genomes entering the nucleus. Epstein-Barr virus (EBV) can efficiently establish stable latent infection as a chromatinized episome in the nucleus of infected cells. The EBV tegument BNRF1 is a DAXX-interacting protein required for the establishment of selective viral gene expression during latency. Here we report the structure of BNRF1 DAXX-interaction domain (DID) in complex with DAXX histone-binding domain (HBD) and histones H3.3-H4. BNRF1 DID contacts DAXX HBD and histones through non-conserved loops. The BNRF1-DAXX interface is responsible for BNRF1 localization to PML-nuclear bodies typically associated with host-antiviral resistance and transcriptional repression. Paradoxically, the interface is also required for selective transcription activation of viral latent cycle genes required for driving B-cell proliferation. These findings reveal molecular details of virus reprogramming of an antiviral histone chaperone to promote viral latency and cellular immortalization.


    Organizational Affiliation

    Gene Expression and Regulation Program, The Wistar Institute, Philadelphia, Pennsylvania 19104, USA.,Structural Biology Program, Memorial Sloan-Kettering Cancer Center, New York, New York 10065, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Histone H3.3
A
135Homo sapiensMutation(s): 0 
Gene Names: H3F3A, H3F3B (H3.3A, H3F3, H3.3B)
Find proteins for P84243 (Homo sapiens)
Go to Gene View: H3F3A H3F3B
Go to UniProtKB:  P84243
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Histone H4
B
102Homo sapiensMutation(s): 0 
Gene Names: HIST1H4A, HIST1H4B, HIST1H4C, HIST1H4D, HIST1H4E, HIST1H4F, HIST1H4H, HIST1H4I, HIST1H4J, HIST1H4K, HIST1H4L, HIST2H4A, HIST2H4B, HIST4H4 (H4/A, H4FA, H4/I, H4FI, H4/G, H4FG, H4/B, H4FB, H4/J, H4FJ, H4/C, H4FC, H4/H, H4FH, H4/M, H4FM, H4/E, H4FE, H4/D, H4FD, H4/K, H4FK, H4/N, H4F2, H4FN, HIST2H4, H4/O, H4FO)
Find proteins for P62805 (Homo sapiens)
Go to UniProtKB:  P62805
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Death domain-associated protein 6
C
212Homo sapiensMutation(s): 0 
Gene Names: DAXX (BING2, DAP6)
Find proteins for Q9UER7 (Homo sapiens)
Go to Gene View: DAXX
Go to UniProtKB:  Q9UER7
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Major tegument protein
D
219Epstein-Barr virus (strain AG876)Mutation(s): 0 
Find proteins for Q1HVJ0 (Epstein-Barr virus (strain AG876))
Go to UniProtKB:  Q1HVJ0
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.280 
  • R-Value Work: 0.234 
  • Space Group: P 32 2 1
Unit Cell:
Length (Å)Angle (°)
a = 161.216α = 90.00
b = 161.216β = 90.00
c = 117.772γ = 120.00
Software Package:
Software NamePurpose
HKL-2000data reduction
PHASERphasing
PHENIXrefinement
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2016-06-08 
  • Released Date: 2016-09-07 
  • Deposition Author(s): Huang, H., Patel, D.

Revision History 

  • Version 1.0: 2016-09-07
    Type: Initial release
  • Version 1.1: 2018-05-16
    Type: Data collection, Database references, Derived calculations, Source and taxonomy