8J9W: Cryo-EM structure of the African swine fever virus topoisomerase 2 complexed with Cut02bDNA and etoposide (EDI-2)

PDB ID: 8J9WDownload
MMDB ID: 242311
PDB Deposition Date: 2023/5/5
Updated in MMDB: 2024/04
Experimental Method:
electron microscopy
Resolution: 2.76  Å
Source Organism:
African swine fever virus▼
Similar Structures:
Biological Unit for 8J9W: hexameric; determined by author
Molecular Components in 8J9W
Label Count Molecule
Proteins (2 molecules)
2
DNA Topoisomerase 2
Molecule annotation
Nucleotides(4 molecules)
2
DNA (5'-d(*ap*ap*gp*ap*ap*cp*tp*cp*tp*gp*tp*ap*g)-3')
Molecule annotation
2
DNA (5'-d(*cp*ap*tp*gp*cp*tp*ap*cp*ap*gp*ap*gp*tp*tp*cp*tp*t)-3')
Molecule annotation
Chemicals and Non-standard biopolymers (4 molecules)
1
2
MAGNESIUM IONMAGNESIUM ION
2
2
(5S,5aR,8aR,9R)-9-(4-hydroxy-3,5-dimethoxyphenyl)-8-oxo-5,5a,6,8,8a,9-hexahydrofuro[3',4':6,7]naphtho[2,3-d][1,3]dioxol -5-yl 4,6-O-[(1R)-ethylidene]-beta-D-glucopyranoside(5S,5aR,8aR,9R)-9-(4-hydroxy-3,5-dimethoxyphenyl)-8-oxo-5,5a,6,8,8a,9-hexahydrofuro[3',4':6,7]naphtho[2,3-d][1,3]dioxol -5-yl 4,6-O-[(1R)-ethylidene]-beta-D-glucopyranoside
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303