SMTL ID : 4xwa.1

TMK from S.aureus in complex with the Piperidinyl Thymine class inhibitor with a C5 ethyl-amine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.89 Å

Oligo State

homo-dimer

Ligands

2 x 43N: 2-(3-chlorophenoxy)-6-(ethylamino)-4-[(R)-[(3S)-3-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)piperidin-1-yl](phenyl)methyl]benzoic acid(Non-covalent)

43N.1: 16 residues within 4Å: Chain A: E.11, E.37, R.48, V.51, L.52, E.62, F.66, S.69, R.70, R.92, S.96, S.97, Y.100, Q.101 Chain B: H.172, S.175 13 PLIP interactions: 1 interactions with chain B, 12 interactions with chain A Water bridges: B:I.171 Hydrophobic interactions: A:R.48, A:V.51, A:F.66, A:F.66, 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 43N.2: 15 residues within 4Å: Chain B: E.11, E.37, I.47, R.48, V.51, L.52, E.62, F.66, S.69, R.70, R.92, S.96, S.97, Y.100, Q.101 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:R.48, B:V.51, B:F.66, B:F.66, B:R.92, B:Y.100 Hydrogen bonds: B:R.70, B:R.70, B:Q.101, B:Q.101 Water bridges: B:R.48 Salt bridges: B:R.48 pi-Stacking: B:F.66

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guler, S.Y. et al., A highly potent antibacterial inhibitor of Gram-positive bacterial thymidylate kinase (TMK): SAR of piperidinyl thymines at position C5 and L1. Bioorg Med Chem Lett (2015)

Release Date

2015-02-11

Peptides

Thymidylate kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Thymidylate kinase

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