Structure-based discovery of a novel non-peptidic small molecular inhibitor of caspase-3.
Ac-DNLD-CHO is a novel caspase-3 specific peptide inhibitor that was rationally designed by our computational strategy. The specificity was shown to be due to the specific interaction of NLD moiety with the active site of caspase-3 on the basis of docking mode and site-directed mutagenesis analyses. Here, we computationally screened non-peptidic small molecular inhibitors of caspase-3 from our chemical library using a reliable pharmacophore derived from the specific binding mode of NLD. Through in vitro enzyme assay of the screened candidate compounds, we discovered a novel caspase-3 specific small molecular inhibitor, CS4566, which has a unique scaffold structure. The binding mode of CS4566 to caspase-3 mimics that of NLD, especially LD moiety. This represents a promising lead compound for creating non-peptidic pharmaceuticals for caspase-mediated diseases, such as neurodegenerative disorders.
Sakai
Junichi
J
Department of Biochemistry, Faculty of Pharmaceutical Sciences, Tokyo University of Science, 2641 Yamazaki, Noda, Chiba 278-8510, Japan.
Yoshimori
Atsushi
A
Nose
Yasuyo
Y
Mizoroki
Akihiko
A
Okita
Naoyuki
N
Takasawa
Ryoko
R
Tanuma
Sei-ichi
S
D001665:Binding Sites; D061945:Caspase Inhibitors; D003198:Computer Simulation; D018360:Crystallography, X-Ray; D015853:Cysteine Proteinase Inhibitors / Q000737:chemistry / Q000494:pharmacology*; D004305:Dose-Response Relationship, Drug; D006801:Humans; D020128:Inhibitory Concentration 50; D008958:Models, Molecular; D015394:Molecular Structure; D008970:Molecular Weight; D009284:Naphthols / Q000138:chemical synthesis* / Q000737:chemistry / Q000494:pharmacology*; D054852:Small Molecule Libraries; D013237:Stereoisomerism; D013329:Structure-Activity Relationship
C530838:4-(ethoxycarbonylmethoxy)-1-hydroxy-2-naphthoic acid; D061945:Caspase Inhibitors; D015853:Cysteine Proteinase Inhibitors; D009284:Naphthols; D054852:Small Molecule Libraries; C024023:1,4-dihydroxy-2-naphthoic acid