› 4r1f

X-ray diffraction
2.51Å resolution

Re-refined Human DNA topoisomerase IIa (ATPase and transducer domains) in complex with ADP and SO4

Released:
DOI: 10.2210/pdb4r1f/pdb
PDB entry 4r1f coloured by chain, front view.
PDB entry 4r1f coloured by chain, side view.
PDB entry 4r1f coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure of the N-terminal Gyrase B fragment in complex with ADP⋅Pi reveals rigid-body motion induced by ATP hydrolysis.
Stanger FV, Dehio C, Schirmer T
PLoS One 9 e107289 (2014)
PMID: 25202966

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:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-145812 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DNA topoisomerase 2-alpha Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 400 amino acids
Theoretical weight: 45.66 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P11388 (Residues: 29-428; Coverage: 26%)
Gene names: TOP2, TOP2A
Sequence domains:
Structure domains:

Ligands and Environments

4 bound ligands:
Ligand MG 4 x MG
Ligand ADP 4 x ADP
Ligand GOL 1 x GOL
Ligand SO4 3 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
Spacegroup: P21
Unit cell:
a: 71.015Å b: 90.492Å c: 148.293Å
α: 90° β: 89.97° γ: 90°
R-values:
R R work R free
0.211 0.208 0.243
Expression system: Escherichia coli

Quick links

Citations

3 review citations

The role of ATP-dependent machines in regulating genome topology.
Hauk et al. (2016)
2 more

4 mentions without citation

Structure of the N-terminal Gyrase B fragment in complex with ADP⋅Pi reveals rigid-body motion induced by ATP hydrolysis.
Stanger et al. (2014)
3 more