SMTL ID : 6cq2.1

Crystal structure of Mycobacterium tuberculosis Topoisomerase I in complex with oligonucleotide MTS2-12 and Magnesium

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

monomer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: E.26, D.113 Chain B: C.6, T.7 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.26, A:D.113, H2O.1 MG.2: 2 residues within 4Å: Chain A: E.298, H.494 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.298, A:E.298, A:H.494, H2O.1 MG.3: 3 residues within 4Å: Chain A: D.222, D.509, H.511 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.509, A:H.511 MG.4: 3 residues within 4Å: Chain A: E.591, E.600, H.615 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.591, A:E.591, A:E.600, A:E.600, A:H.615

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.5: 5 residues within 4Å: Chain A: D.113, G.114, H.141, Q.388, H.391 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.114, A:G.114, A:H.391 Salt bridges: A:H.141

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cao, N. et al., Investigating mycobacterial topoisomerase I mechanism from the analysis of metal and DNA substrate interactions at the active site. Nucleic Acids Res. (2018)

Release Date

2018-05-30

Peptides

DNA topoisomerase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

DNA topoisomerase 1

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