SMTL ID : 4hyp.5 (5 other biounits)

Pyrrolopyrimidine inhibitors of dna gyrase b and topoisomerase iv, part i: structure guided discovery and optimization of dual targeting agents with potent, broad-spectrum enzymatic activity.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

2 x 1A1: N-[7-(1H-imidazol-1-yl)-2-(pyridin-3-yl)[1,3]thiazolo[5,4-d]pyrimidin-5-yl]cyclopropanecarboxamide(Non-covalent)

1A1.1: 14 residues within 4Å: Chain A: V.30, N.33, A.34, E.37, V.58, D.60, R.63, G.64, I.65, P.66, I.81, F.91, R.123, T.152 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:V.30, A:A.34, A:V.58, A:P.66, A:F.91, A:T.152 Hydrogen bonds: A:D.60, A:I.65, A:R.123, A:T.152 Water bridges: A:R.63 pi-Cation interactions: A:R.63 1A1.3: 15 residues within 4Å: Chain B: V.30, N.33, A.34, E.37, V.58, D.60, R.63, G.64, I.65, P.66, I.81, F.91, R.123, T.152, V.154 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:V.30, B:A.34, B:V.58, B:P.66, B:F.91, B:T.152, B:V.154 Hydrogen bonds: B:D.60, B:R.123 Water bridges: B:N.33, B:E.37, B:R.123, B:T.152, B:T.152

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: E.29, D.32, G.101, L.102, V.105 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.29, A:D.32, A:L.102, A:V.105, H2O.3 MG.4: 3 residues within 4Å: Chain B: E.29, D.32, V.105 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.29, B:D.32, B:V.105, H2O.7, H2O.7

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tari, L.W. et al., Pyrrolopyrimidine inhibitors of DNA gyrase B (GyrB) and topoisomerase IV (ParE). Part I: Structure guided discovery and optimization of dual targeting agents with potent, broad-spectrum enzymatic activity. Bioorg.Med.Chem.Lett. (2013)

Release Date

2013-02-13

Peptides

DNA gyrase subunit B: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

DNA gyrase subunit B

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