› 4g0w

X-ray diffraction
2.7Å resolution

Human topoisomerase iibeta in complex with DNA and ametantrone

Released:
DOI: 10.2210/pdb4g0w/pdb
PDB entry 4g0w coloured by chain, front view.
PDB entry 4g0w coloured by chain, side view.
PDB entry 4g0w coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
On the structural basis and design guidelines for type II topoisomerase-targeting anticancer drugs.
Wu CC, Li YC, Wang YR, Li TK, Chan NL
Nucleic Acids Res 41 10630-40 (2013)
PMID: 24038465

Function and Biology Details

Reaction catalysed: 
ATP-dependent breakage, passage and rejoining of double-stranded DNA
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-117525 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
DNA topoisomerase 2-beta Chains: A, B
Molecule details ›
Chains: A, B
Length: 803 amino acids
Theoretical weight: 91.93 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q02880 (Residues: 450-1206; Coverage: 47%)
Gene name: TOP2B
Sequence domains:
Structure domains:
DNA (5'-D(P*AP*GP*CP*CP*GP*AP*GP*C)-3') Chains: C, E
Molecule details ›
Chains: C, E
Length: 8 nucleotides
Theoretical weight: 2.44 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (5'-D(P*TP*GP*CP*AP*GP*CP*TP*CP*GP*GP*CP*T)-3') Chains: D, F
Molecule details ›
Chains: D, F
Length: 12 nucleotides
Theoretical weight: 3.65 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand MG 6 x MG
Ligand AKE 2 x AKE
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSRRC BEAMLINE BL13B1
Spacegroup: P21
Unit cell:
a: 80.662Å b: 176.424Å c: 93.635Å
α: 90° β: 112.04° γ: 90°
R-values:
R R work R free
0.168 0.165 0.215
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

18 review citations

Topoisomerases as anticancer targets.
Delgado et al. (2018)
17 more

3 mentions without citation

On the structural basis and design guidelines for type II topoisomerase-targeting anticancer drugs.
Wu et al. (2013)
2 more