› 5d5h

X-ray diffraction
2.52Å resolution

Crystal structure of Mycobacterium tuberculosis Topoisomerase I

Released:
DOI: 10.2210/pdb5d5h/pdb
PDB entry 5d5h coloured by chain, front view.
PDB entry 5d5h coloured by chain, side view.
PDB entry 5d5h coloured by chain, top view.
Source organism: Mycobacterium tuberculosis H37Rv
Primary publication:
Insights from the Structure of Mycobacterium tuberculosis Topoisomerase I with a Novel Protein Fold.
Tan K, Cao N, Cheng B, Joachimiak A, Tse-Dinh YC
J Mol Biol 428 182-193 (2016)
PMID: 26655023

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-161458 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DNA topoisomerase 1 Chain: A
Molecule details ›
Chain: A
Length: 706 amino acids
Theoretical weight: 77.84 KDa
Source organism: Mycobacterium tuberculosis H37Rv
Expression system: Escherichia coli
UniProt:
  • Canonical: P9WG49 (Residues: 2-704; Coverage: 75%)
Gene names: MTCY15C10.06, Rv3646c, topA
Sequence domains:
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand SO4 5 x SO4
Ligand GOL 2 x GOL
Ligand ACT 1 x ACT
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P212121
Unit cell:
a: 64.002Å b: 93.149Å c: 140.243Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.177 0.174 0.241
Expression system: Escherichia coli

Quick links

Citations

3 review citations

DNA topoisomerase I and DNA gyrase as targets for TB therapy.
Nagaraja et al. (2017)
2 more

10 mentions without citation

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