4QGG: Tmk In Complex With Compound 46, 2-(3-chlorophenoxy)-3-fluoro-4-{(1r)- 3-methyl-1-[(3s)-3-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2h)- Yl)piperidin-1-yl]butyl}benzoic Acid

Thymidylate kinase (TMK), an essential enzyme in bacterial DNA biosynthesis, is an attractive therapeutic target for the development of novel antibacterial agents, and we continue to explore TMK inhibitors with improved potency, protein binding, and pharmacokinetic potential. A structure-guided design approach was employed to exploit a previously unexplored region in Staphylococcus aureus TMK via novel interactions. These efforts produced compound 39, with 3 nM IC50 against S. aureus TMK and 2 mug/mL MIC against methicillin-resistant S. aureus (MRSA). This compound exhibits a striking inverted chiral preference for binding relative to earlier compounds and also has improved physical properties and pharmacokinetics over previously published compounds. An example of this new series was efficacious in a murine S. aureus infection model, suggesting that compounds like 39 are options for further work toward a new Gram-positive antibiotic by maintaining a balance of microbiological potency, low clearance, and low protein binding that can result in lower efficacious doses.
PDB ID: 4QGGDownload
MMDB ID: 120683
PDB Deposition Date: 2014/5/22
Updated in MMDB: 2014/07
Experimental Method:
x-ray diffraction
Resolution: 1.62  Å
Source Organism:
Similar Structures:
Biological Unit for 4QGG: dimeric; determined by author and by software (PISA)
Molecular Components in 4QGG
Label Count Molecule
Proteins (2 molecules)
Thymidylate Kinase
Molecule annotation
Chemicals (2 molecules)
* Click molecule labels to explore molecular sequence information.

Citing MMDB