SMTL ID : 4qga.1

S.aureus TMK in complex with potent inhibitor compound 19, 2-(3-CHLOROPHENOXY)-3-FLUORO-4-{[(3S)-3-(5-METHYL-2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)PIPERIDIN-1-YL]METHYL}BENZOIC ACID

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

homo-dimer

Ligands

2 x 31Z: 2-(3-chlorophenoxy)-3-fluoro-4-{[(3S)-3-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)piperidin-1-yl]methyl}benzoic acid(Non-covalent)

31Z.1: 13 residues within 4Å: Chain A: E.11, E.37, R.48, V.51, L.52, F.66, S.69, R.70, R.92, S.96, S.97, Y.100, Q.101 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:R.48, A:L.52, A:R.92, A:Y.100 Hydrogen bonds: A:R.70, A:R.70, A:Q.101, A:Q.101 Salt bridges: A:R.48 pi-Stacking: A:F.66, A:F.66 31Z.2: 12 residues within 4Å: Chain B: E.37, R.48, V.51, L.52, F.66, S.69, R.70, R.92, S.96, S.97, Y.100, Q.101 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:R.48, B:R.92, B:Y.100 Hydrogen bonds: B:R.70, B:R.70, B:Q.101, B:Q.101 Salt bridges: B:R.48 pi-Stacking: B:F.66, B:F.66

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kawatkar, S.P. et al., Antibacterial inhibitors of gram-positive thymidylate kinase: structure-activity relationships and chiral preference of a new hydrophobic binding region. J.Med.Chem. (2014)

Release Date

2014-06-11

Peptides

Thymidylate kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Thymidylate kinase

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