Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Dihedral - D4  (3D View)
Global Stoichiometry: Homo 8-mer - A8 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 18.27 kDa 
• Atom Count: 951 
• Modelled Residue Count: 118 
• Deposited Residue Count: 160 
• Unique protein chains: 1

2YQ0

KSHV LANA (ORF73) C-terminal domain, octameric ring: cubic crystal form

• PDB DOI: 10.2210/pdb2YQ0/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Human herpesvirus 8 type M
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2012-11-02 Released: 2013-11-13 
• Deposition Author(s): Hellert, J., Krausze, J., Luhrs, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.91 Å
• R-Value Free: 0.317 
• R-Value Work: 0.260 
• R-Value Observed: 0.262 

Literature

A Structural Basis for Brd2/4-Mediated Host Chromatin Interaction and Oligomer Assembly of Kaposi Sarcoma-Associated Herpesvirus and Murine Gammaherpesvirus Lana Proteins.

Hellert, J., Weidner-Glunde, M., Krausze, J., Richter, U., Adler, H., Fedorov, R., Pietrek, M., Ruckert, J., Ritter, C., Schulz, T.F., Luhrs, T.

(2013) PLoS Pathog 9: 3640

• PubMed: 24146614 
• DOI: 10.1371/journal.ppat.1003640
• Primary Citation of Related Structures:  
  2YPY, 2YPZ, 2YQ0, 2YQ1


• PubMed Abstract: 
  

Kaposi sarcoma-associated herpesvirus (KSHV) establishes a lifelong latent infection and causes several malignancies in humans. Murine herpesvirus 68 (MHV-68) is a related γ2-herpesvirus frequently used as a model to study the biology of γ-herpesviruses in vivo. The KSHV latency-associated nuclear antigen (kLANA) and the MHV68 mLANA (orf73) protein are required for latent viral replication and persistence. Latent episomal KSHV genomes and kLANA form nuclear microdomains, termed 'LANA speckles', which also contain cellular chromatin proteins, including BRD2 and BRD4, members of the BRD/BET family of chromatin modulators. We solved the X-ray crystal structure of the C-terminal DNA binding domains (CTD) of kLANA and MHV-68 mLANA. While these structures share the overall fold with the EBNA1 protein of Epstein-Barr virus, they differ substantially in their surface characteristics. Opposite to the DNA binding site, both kLANA and mLANA CTD contain a characteristic lysine-rich positively charged surface patch, which appears to be a unique feature of γ2-herpesviral LANA proteins. Importantly, kLANA and mLANA CTD dimers undergo higher order oligomerization. Using NMR spectroscopy we identified a specific binding site for the ET domains of BRD2/4 on kLANA. Functional studies employing multiple kLANA mutants indicate that the oligomerization of native kLANA CTD dimers, the characteristic basic patch and the ET binding site on the kLANA surface are required for the formation of kLANA 'nuclear speckles' and latent replication. Similarly, the basic patch on mLANA contributes to the establishment of MHV-68 latency in spleen cells in vivo. In summary, our data provide a structural basis for the formation of higher order LANA oligomers, which is required for nuclear speckle formation, latent replication and viral persistence.

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Organizational Affiliation: 

Department of Structural Biology, Helmholtz Centre for Infection Research, Braunschweig, Germany.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ORF 73	A	160	Human herpesvirus 8 type M	Mutation(s): 0
UniProt
Find proteins for Q76SB0 (Human herpesvirus 8 type M) Explore Q76SB0  Go to UniProtKB:  Q76SB0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	B [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.91 Å
• R-Value Free: 0.317 
• R-Value Work: 0.260 
• R-Value Observed: 0.262 
• Space Group: P 4 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 107.4	α = 90
b = 107.4	β = 90
c = 107.4	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-11-02 
• Released Date: 2013-11-13 
Deposition Author(s): Hellert, J., Krausze, J., Luhrs, T.

Revision History  

• Version 1.0: 2013-11-13
  Type: Initial release
  
• Version 1.1: 2014-01-29
  Changes: Derived calculations, Other
• Version 1.2: 2019-04-03
  Changes: Data collection, Experimental preparation, Other
• Version 1.3: 2019-05-08
  Changes: Data collection, Experimental preparation