SMTL ID : 3k9f.1

Detailed structural insight into the quinolone-DNA cleavage complex of type IIA topoisomerases

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 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, K.202 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, K.202 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:D.127, D:D.129

2 x LFX: (3S)-9-fluoro-3-methyl-10-(4-methylpiperazin-1-yl)-7-oxo-2,3-dihydro-7H-[1,4]oxazino[2,3,4-ij]quinoline-6-carboxylic acid(Non-covalent)

LFX.3: 9 residues within 4Å: Chain A: S.79 Chain B: R.117 Chain C: R.77, G.78, E.96 Chain E: T.15 Chain F: C.4, A.5 Chain H: G.1 3 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C, 1 interactions with chain A Salt bridges: B:R.117, C:E.96 Hydrogen bonds: A:S.79 LFX.4: 10 residues within 4Å: Chain A: R.117 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 3 PLIP interactions: 1 interactions with chain A, 1 interactions with chain D, 1 interactions with chain B Salt bridges: A:R.117, D:E.96 Hydrogen bonds: B:S.79

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

2009-10-27

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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