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Updated: Jan 11, 2026

Biochemical and Structural Characterization of the Carbohydrate Transport Substrate-binding-protein SP0092
Published on: October 2, 2017
Antibacterial Benzimidazole-2-Methanamines as Allosteric Modulators of Streptococcus pneumoniae Penicillin-Binding
Homero Dominguez-Cisneros1, Mohini Mohan Konai1, Choon Kim1
1Department of Chemistry and Biochemistry, University of Notre Dame, Notre Dame, Indiana 46556, United States.
Abstract:
The allosteric site of penicillin-binding protein 2x (PBP2x), an essential enzyme of cell-wall biosynthesis of Streptococcus pneumoniae, was targeted in virtual screening of >2 M compounds. A benzimidazole-2-methanamine hit emerged, which exhibited a modest minimal-inhibitory concentration (MIC) of 32 mg·L-1. A structure-activity campaign around the structural template resulted in evaluation of 96 compounds, leading to several analogs with MIC of ≤4 mg·L-1. These compounds exhibited a broad-based bactericidal growth inhibition against 31 clinical strains of S. pneumoniae.
Insights
Researchers identified novel benzimidazole-2-methanamine compounds targeting penicillin-binding protein 2x (PBP2x) in Streptococcus pneumoniae. These compounds show significant bactericidal activity against clinical strains, offering potential new antibiotic therapies.
Area of Science:
- Medicinal Chemistry
- Microbiology
- Drug Discovery
Background:
- Penicillin-binding protein 2x (PBP2x) is crucial for Streptococcus pneumoniae cell-wall biosynthesis.
- Developing novel antibiotics against resistant bacterial strains is a global health priority.
Purpose of the Study:
- To identify novel inhibitors of PBP2x through virtual screening.
- To develop potent bactericidal compounds against Streptococcus pneumoniae.
Main Methods:
- Virtual screening of over 2 million compounds to identify PBP2x allosteric site inhibitors.
- Structure-activity relationship studies involving 96 synthesized analogs.
- Minimal inhibitory concentration (MIC) determination and broad-spectrum bactericidal testing against clinical isolates.
Main Results:
- A benzimidazole-2-methanamine derivative was identified as a promising hit.
- Optimization led to analogs with significantly reduced MIC values (≤4 mg·L⁻¹).
- The developed compounds demonstrated broad-based bactericidal growth inhibition against 31 clinical strains of S. pneumoniae.
Conclusions:
- Novel benzimidazole-2-methanamine analogs are effective inhibitors of PBP2x.
- These compounds exhibit potent bactericidal activity against clinical isolates of S. pneumoniae.
- The findings present a promising new avenue for developing antibiotics against pneumococcal infections.
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