SMTL ID : 5iwm.1

2.5A structure of GSK945237 with S.aureus DNA gyrase and DNA.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-2-2-mer

Ligands

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 4 residues within 4Å: Chain A: E.27, D.100 Chain E: G.8, G.9 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.27, A:D.100, H2O.1, H2O.1 MN.2: 4 residues within 4Å: Chain C: E.27, D.100 Chain F: T.8, G.9 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:E.27, C:D.100, H2O.5, H2O.6

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain D: P.43, R.46, R.47, E.155, P.156 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:R.46, D:R.46, D:R.47 Water bridges: D:E.155, D:E.155

1 x 6EJ: (1R)-1-[(4-{[(6,7-dihydro[1,4]dioxino[2,3-c]pyridazin-3-yl)methyl]amino}piperidin-1-yl)methyl]-9-fluoro-1,2-dihydro-4H-pyrrolo[3,2,1-ij]quinolin-4-one(Non-covalent)

6EJ.4: 14 residues within 4Å: Chain B: A.67, M.74, D.82, S.83, M.120 Chain D: A.67, G.71, M.74, D.82, M.120 Chain E: T.10, T.11 Chain F: A.10, A.11 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Miles, T.J. et al., Novel tricyclics (e.g., GSK945237) as potent inhibitors of bacterial type IIA topoisomerases. Bioorg.Med.Chem.Lett. (2016)

Release Date

2016-05-25

Peptides

DNA gyrase subunit B,DNA gyrase subunit B: AC
DNA gyrase subunit A: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

C
D

B
A

D
C

DNA gyrase subunit B,DNA gyrase subunit B

DNA gyrase subunit A

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