5SZX

Epstein-Barr virus Zta DNA binding domain homodimer in complex with methylated DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.284
  • R-Value Work: 0.259

Literature

Macromolecules
Sequence Display for 5SZX

Classification: TRANSCRIPTION REGULATOR / DNA

Total Structure Weight: 25752.29


Macromolecule Entities
Molecule Chains Length Organism Details
Zta transcription factor A, B 62 Human gammaherpesvirus 4 Fragment: DNA binding domain (UNP residues 175-236)
Mutation: C189S
Gene Name(s): BZLF1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(*TP*CP*TP*TP*CP*AP*TP*(5CM)P*GP*CP*TP*CP*AP*GP*TP*GP*CP*T)-3') C 18 Synthetic construct
DNA (5'-D(*AP*AP*GP*CP*AP*CP*TP*GP*AP*GP*(5CM)P*GP*AP*TP*GP*AP*AP*G)-3') D 18 Synthetic construct

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PO4
Query on PO4

A PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
5CM
Query on 5CM
C, D DNA LINKING C10 H16 N3 O7 P DC

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 0.284
  • R-Value Work: 0.259
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 95.55 α = 90.00
b = 26.73 β = 97.25
c = 99.67 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-08-15
  • Released Date: 2017-03-01
  • Deposition author(s): Hong, S., Horton, J.R., Cheng, X.

Revision History

  • Version 1_0: 2017-03-01

    Type: Initial release

  • Version 1_1: 2017-05-03

    Type: Database references

  • Version 1_2: 2017-09-27

    Type: Data collection