Chemical tools for selective activity profiling of bacterial penicillin-binding proteins

• Published in: Methods in enzymology Vol. 638; p. 27
• Main Authors: Sharifzadeh, Shabnam, Brown, Nathaniel W, Shirley, Joshua D, Bruce, Kevin E, Winkler, Malcolm E, Carlson, Erin E
• Format: Book Chapter
• Language: English
• Published: United States 15.05.2020
• Subjects: Penicillin-binding proteins; Activity-based probes; Chemical probe design; Super-resolution fluorescence microscopy; β-Lactones; Activity-based protein profiling; Electrophilic center; Chemical probes; Chemical microbiology
• ISBN: 9780128201459

Penicillin-binding proteins (PBPs) are membrane-associated proteins involved in the biosynthesis of peptidoglycan (PG), the main component of bacterial cell walls. These proteins were discovered and named for their affinity to bind the β-lactam antibiotic penicillin. The importance of the PBPs has long been appreciated; however, specific roles of individual family members in each bacterial strain, as well as their protein-protein interactions, are yet to be understood. The apparent functional redundancy of the 4-18 PBPs that most eubacteria possess makes determination of their individual roles difficult. Existing techniques to study PBPs are not ideal because they do not directly visualize protein activity and can suffer from artifacts and perturbations of native PBP function. Therefore, development of new methods for studying the roles of individual PBPs in cell wall synthesis is required. We recently generated a library of fluorescent chemical probes containing a β-lactone scaffold that specifically targets the PBPs, enabling the visualization of their catalytic activity. Herein, we describe a general protocol to label and detect the activity of individual PBPs in Streptococcus pneumoniae using our fluorescent β-lactone probes.