› 7nx5

X-ray diffraction
2.5Å resolution

Crystal structure of the Epstein-Barr Virus protein ZEBRA (BZLF1, Zta) bound to a methylated DNA duplex

Released:
DOI: 10.2210/pdb7nx5/pdb
PDB entry 7nx5 coloured by chain, front view.
PDB entry 7nx5 coloured by chain, side view.
PDB entry 7nx5 coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis of DNA methylation-dependent site selectivity of the Epstein-Barr virus lytic switch protein ZEBRA/Zta/BZLF1.
Bernaudat F, Gustems M, Günther J, Oliva MF, Buschle A, Göbel C, Pagniez P, Lupo J, Signor L, Müller CW, Morand P, Sattler M, Hammerschmidt W, Petosa C
Nucleic Acids Res 50 490-511 (2022)
PMID: 34893887

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-121708 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Lytic switch protein BZLF1 Chains: A, B, E, F
Molecule details ›
Chains: A, B, E, F
Length: 63 amino acids
Theoretical weight: 7.43 KDa
Source organism: Human herpesvirus 4 strain B95-8
Expression system: Escherichia coli
UniProt:
  • Canonical: P03206 (Residues: 175-236; Coverage: 25%)
Gene name: BZLF1
meZRE2 DNA (bottom strand) Chains: C, G
Molecule details ›
Chains: C, G
Length: 19 nucleotides
Theoretical weight: 5.76 KDa
Source organism: Human gammaherpesvirus 4
Expression system: Not provided
meZRE2 DNA (top strand) Chains: D, H
Molecule details ›
Chains: D, H
Length: 19 nucleotides
Theoretical weight: 5.92 KDa
Source organism: Human gammaherpesvirus 4
Expression system: Not provided

Ligands and Environments

No bound ligands
1 modified residue:
Ligand 5CM 4 x 5CM

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-2
Spacegroup: C2
Unit cell:
a: 207.99Å b: 26.56Å c: 80.85Å
α: 90° β: 103.104° γ: 90°
R-values:
R R work R free
0.282 0.277 0.339
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

2 review citations

Virological Markers in Epstein-Barr Virus-Associated Diseases.
Lupo et al. (2023)
1 more

1 mention without citation

Structural basis of DNA methylation-dependent site selectivity of the Epstein-Barr virus lytic switch protein ZEBRA/Zta/BZLF1.
Bernaudat et al. (2022)