Employing a Highly Potent Fluorescence Probe to Discover a Poly (Adenosine Diphosphate-ribose) Polymerases-1/2 Binder...

Poly (ADP-ribose) polymerases-1/2 (PARP-1/2) has been identified as important antitumor drug targets and the development of PARP-1/2 inhibitors featuring novel structures is still a promising strategy for cancer treatments. In this work, a highly potent PARP-1/2 probe with a quinazolinone scaffold was designed and synthesized, showing dissociation constants (K_d) of 2.07 and 1.6 nM toward catPARP-1 and catPARP-2SE, respectively. By employing this probe to screen an in-house compound library, compound A bearing a pyrazolo[1,5-a]pyrimidine-3-carboxamide scaffold is disclosed as a structurally novel PARP-1/2 binder, which has dissociation constants of 5.6 and 7.9 μM for catPARP-1 and catPARP-2SE, respectively, in the isothermal titration calorimetry (ITC) assay. Moreover, the crystal structures of compound A in complex with PARP-1 and PARP-2 catalytic domains are solved to reveal the binding modes of this compound and these two complex structures are analyzed with IGMH method at GFN2-xTB and B3LYP levels. Interestingly, this compound presents significant differences in binding modes within PARP-1 and PARP-2. These results can provide a structural basis for the discovery of novel PARP-1 or PARP-2 selective inhibitors by taking compound A as a template structure.