8KGS

Structure of African swine fever virus topoisomerase II in complex with dsDNA

• PDB DOI: https://doi.org/10.2210/pdb8KGS/pdb

• Classification: VIRAL PROTEIN
• Organism(s): African swine fever virus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-08-19 Released: 2024-04-03 
• Deposition Author(s): Cong, J., Xin, Y., Li, X., Chen, Y.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.244 
• R-Value Work: 0.200 
• R-Value Observed: 0.202 

Literature

Structure of African swine fever virus topoisomerase II in complex with dsDNA

Jingyuan, C., Yuhui, X., Xuemei, L., Chen, Y.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 50.05 kDa 
• Atom Count: 3,294 
• Modelled Residue Count: 403 
• Deposited Residue Count: 442 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA topoisomerase 2	A	442	African swine fever virus	Mutation(s): 0  Gene Names: P1192R CDS
UniProt
Find proteins for A0A2X0THW2 (African swine fever virus) Explore A0A2X0THW2  Go to UniProtKB:  A0A2X0THW2

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ANP (Subject of Investigation/LOI)	C [auth A]	PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER C10 H17 N6 O12 P3 PVKSNHVPLWYQGJ-KQYNXXCUSA-N
MG (Subject of Investigation/LOI)	B [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.244 
• R-Value Work: 0.200 
• R-Value Observed: 0.202 
• Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 85.077	α = 90
b = 85.077	β = 90
c = 210.18	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-04-03 
Deposition Author(s): Cong, J., Xin, Y., Li, X., Chen, Y.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-04-03
  Type: Initial release