Cerebral deposition of amyloid -protein (A) is believed to play a key role in the pathogenesis of Alzheimer's disease. Because A is produced from the processing of amyloid -protein precursor (APP) by -and ␥-secretases, these enzymes are considered important therapeutic targets for identification of drugs to treat Alzheimer's disease. Unlike -secretase, which is a monomeric aspartyl protease, ␥-secretase activity resides as part of a membrane-bound, high molecular weight, macromolecular complex. Pepstatin and L685458 are among several structural classes of ␥-secretase inhibitors identified so far. These compounds possess a hydroxyethylene dipeptide isostere of aspartyl protease transition state analogs, suggesting ␥-secretase may be an aspartyl protease. However, the mechanism of inhibition of ␥-secretase by pepstatin and L685458 has not been elucidated. In this study, we report that pepstatin A methylester and L685458 unexpectedly displayed linear non-competitive inhibition of ␥-secretase. Sulfonamides and benzodiazepines, which do not resemble transition state analogs of aspartyl proteases, also displayed potent, non-competitive inhibition of ␥-secretase. Models to rationalize how transition state analogs inhibit their targets by non-competitive inhibition are discussed.
Accumulation and deposition of -amyloid (A)1 peptides in the cerebral cortex is believed to be an early and central process in the pathogenesis of Alzheimer's disease. The A peptides are generated from sequential proteolytic cleavage of the amyloid precursor protein (APP) by -and ␥-secretases, which are therefore considered important targets for therapeutic intervention. Molecular cloning (1-3) and crystallographic studies (4) have unequivocally established -secretase as an aspartyl protease. However, the identity of ␥-secretase remains elusive.It is known that transmembrane proteins presenilin 1 (PS1) and presenilin 2 (PS2) are essential for intramembranous proteolytic ␥-cleavage of APP (5) and a few other ␥-secretase substrates such as Notch (6 -9) and ErbB4 (10). Evidence suggests that presenilins may have direct catalytic activity (11, 12), but recent reports indicate that this activity requires interactions between presenilins and other proteins such as nicastrin (13) and co-fractionates with a very high molecular weight complex (14). Mature presenilins themselves form subunit heterodimers between the N-and C-terminal fragments, which are generated from endoproteolytic cleavage of the full-length presenilin (15, 16). This complex membrane-bound molecular organization has hindered efforts to purify and reconstitute ␥-secretase activity.In the absence of purified enzyme and crystal structures, inhibition studies have played a prominent role in the understanding of the nature of ␥-secretase. ␥-secretase activity is sensitive to aspartyl protease transition state analogs such as the hydroxyl ethylene isosteres, pepstatin (17-19) and L685458 (20), typical aspartyl protease transition state inhibitors. Peptidomimetics containing a dif...