Development of phenyl-urea-based small molecules that target penicillin-binding protein 4

Chem Biol Drug Des. 2024 Jun;103(6):e14569. doi: 10.1111/cbdd.14569.

Abstract

Staphylococcus aureus has the ability to invade cortical bone osteocyte lacuno-canalicular networks (OLCNs) and cause osteomyelitis. It was recently established that the cell wall transpeptidase, penicillin-binding protein 4 (PBP4), is crucial for this function, with pbp4 deletion strains unable to invade OLCNs and cause bone pathogenesis in a murine model of S. aureus osteomyelitis. Moreover, PBP4 has recently been found to modulate S. aureus resistance to β-lactam antibiotics. As such, small molecule inhibitors of S. aureus PBP4 may represent dual functional antimicrobial agents that limit osteomyelitis and/or reverse antibiotic resistance. A high throughput screen recently revealed that the phenyl-urea 1 targets PBP4. Herein, we describe a structure-activity relationship (SAR) study on 1. Leveraging in silico docking and modeling, a set of analogs was synthesized and assessed for PBP4 inhibitory activities. Results revealed a preliminary SAR and identified lead compounds with enhanced binding to PBP4, more potent antibiotic resistance reversal, and diminished PBP4 cell wall transpeptidase activity in comparison to 1.

Keywords: osteomyelitis; PBP4; methicillin‐resistant Staphylococcus aureus; phenyl‐urea; β‐lactam.

MeSH terms

  • Animals
  • Anti-Bacterial Agents* / chemistry
  • Anti-Bacterial Agents* / pharmacology
  • Bacterial Proteins / antagonists & inhibitors
  • Bacterial Proteins / metabolism
  • Mice
  • Microbial Sensitivity Tests
  • Molecular Docking Simulation*
  • Penicillin-Binding Proteins* / antagonists & inhibitors
  • Penicillin-Binding Proteins* / metabolism
  • Small Molecule Libraries / chemistry
  • Small Molecule Libraries / pharmacology
  • Staphylococcus aureus* / drug effects
  • Structure-Activity Relationship
  • Urea / analogs & derivatives
  • Urea / chemistry
  • Urea / pharmacology

Substances

  • Penicillin-Binding Proteins
  • Anti-Bacterial Agents
  • Small Molecule Libraries
  • Urea
  • Bacterial Proteins