Development of a Potent Bcl-xL Antagonist Based on α-Helix Mimicry

O Kutzki, HS Park, JT Ernst, BP Orner… - Journal of the …, 2002 - ACS Publications
O Kutzki, HS Park, JT Ernst, BP Orner, H Yin, AD Hamilton
Journal of the American Chemical Society, 2002ACS Publications
The rational design of low-molecular weight ligands that disrupt protein− protein interactions
is still a challenging goal in medicinal chemistry. Our approach to this problem involves the
design of molecular scaffolds that mimic the surface functionality projected along one face of
an α-helix. Using a terphenyl scaffold, which in a staggered conformation closely reproduces
the projection of functionality on the surface of an α-helix, we designed mimics of the pro-
apoptotic α-helical Bak-peptide as inhibitors of the Bak/Bcl-xL interaction. This led to the …
The rational design of low-molecular weight ligands that disrupt protein−protein interactions is still a challenging goal in medicinal chemistry. Our approach to this problem involves the design of molecular scaffolds that mimic the surface functionality projected along one face of an α-helix. Using a terphenyl scaffold, which in a staggered conformation closely reproduces the projection of functionality on the surface of an α-helix, we designed mimics of the pro-apoptotic α-helical Bak-peptide as inhibitors of the Bak/Bcl-xL interaction. This led to the development of a potent Bcl-xL antagonist (KD = 114 nM), whose binding affinity for Bcl-xL was assessed by a fluorescence polarization assay. To determine the binding site of the developed inhibitor we used docking studies and an HSQC-NMR experiment with 15N-labeled Bcl-xL protein. These studies suggest that the inhibitor is binding in the same hydrophobic cleft as the Bak- and Bad-peptides.
ACS Publications