› 5gvc

X-ray diffraction
2.44Å resolution

Human Topoisomerase IIIb topo domain

Released:
DOI: 10.2210/pdb5gvc/pdb
PDB entry 5gvc coloured by chain, front view.
PDB entry 5gvc coloured by chain, side view.
PDB entry 5gvc coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis of the interaction between Topoisomerase IIIβ and the TDRD3 auxiliary factor.
Goto-Ito S, Yamagata A, Takahashi TS, Sato Y, Fukai S
Sci Rep 7 42123 (2017)
PMID: 28176834

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-132096 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DNA topoisomerase 3-beta-1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 615 amino acids
Theoretical weight: 69.32 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: O95985 (Residues: 1-612; Coverage: 71%)
Gene names: TOP3B, TOP3B1
Sequence domains:
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand MG 2 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: C2
Unit cell:
a: 176.088Å b: 93.665Å c: 91.608Å
α: 90° β: 91.88° γ: 90°
R-values:
R R work R free
0.184 0.182 0.229
Expression system: Spodoptera frugiperda

Quick links

Citations

7 review citations

Born to run: control of transcription elongation by RNA polymerase II.
Chen et al. (2018)
6 more

6 mentions without citation

Mechanism of Type IA Topoisomerases.
Dasgupta et al. (2020)
5 more