SMTL ID : 3ltn.1

Inhibitor-stabilized topoisomerase IV-DNA cleavage complex (S. pneumoniae)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

hetero-2-2-mer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain C: D.127, D.129 Chain E: T.15 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:D.127, C:D.129 MG.2: 3 residues within 4Å: Chain D: D.127, D.129 Chain G: T.15 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:D.127, D:D.129

2 x PDQ: 3-amino-7-{(3R)-3-[(1S)-1-aminoethyl]pyrrolidin-1-yl}-1-cyclopropyl-6-fluoro-8-methylquinazoline-2,4(1H,3H)-dione(Non-covalent)

PDQ.3: 11 residues within 4Å: Chain A: S.79 Chain B: R.117, Y.118 Chain C: R.77, G.78, E.95, E.96 Chain E: T.15 Chain F: C.4, A.5 Chain H: G.1 6 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C, 2 interactions with chain A Hydrogen bonds: B:R.117, B:R.117, C:E.96, A:S.79, A:S.79 Hydrophobic interactions: C:R.77 PDQ.4: 11 residues within 4Å: Chain A: R.117, Y.118 Chain B: S.79 Chain D: R.77, G.78, E.95, E.96 Chain F: A.1 Chain G: T.15 Chain H: T.4, A.5 6 PLIP interactions: 2 interactions with chain D, 2 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: D:R.77 Hydrogen bonds: D:E.96, B:S.79, B:S.79, A:R.117, A:R.117

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Laponogov, I. et al., Structural Basis of Gate-DNA Breakage and Resealing by Type II Topoisomerases. Plos One (2010)

Release Date

2010-05-05

Peptides

DNA topoisomerase 4 subunit A: AB
DNA topoisomerase 4 subunit B: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

DNA topoisomerase 4 subunit A

DNA topoisomerase 4 subunit B

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