Fluorescence assays are useful tools for estimating enzymatic activity. Their simplicity and manageability make them suitable for screening enzyme inhibitors in drug discovery studies. However, researchers need to pay attention to compounds that show auto-fluorescence and quench fluorescence, because such compounds lower the accuracy of the fluorescence assay systems by producing false-positive or negative results. In this study, we found that aurone compound 7, which has been reported as a histone deacetylase (HDAC) inhibitor, gave false-positive results. Although compound 7 was identified by an in vitro HDAC fluorescence assay, it did not show HDAC inhibitory activity in a cell-based assay, leading us to suspect its in vitro HDAC inhibitory activity. As a result of verification experiments, we found that compound 7 interferes with the HDAC fluorescence assay by quenching the HDAC fluorescence signal. Our findings underscore the faults of fluorescence assays and call attention to careless interpretation.Key words fluorescence assay; histone deacetylase (HDAC); drug discovery screening; enzymatic activityThe evaluation of enzymatic activity is essential for understanding the biology of an enzyme or identifying its inhibitors. At present, in vitro or cell-based fluorescence assays are often used for the estimation of enzymatic activity, or for high-throughput screening for drug candidates.1-4) For example, substrates bearing a fluorophore are available for estimating the activity of trypsin or caspase-3 or searching their inhibitors 5-7) (Figs. 1A-C). Trypsin or caspase-3 recognizes a particular amino acid or amino acid sequence in the fluorescent substrates and specifically cleaves the peptide bond of the C-terminus to release a fluorophore, such as 7-amino-4-methylcoumarin (AMC, 1) (Fig. 1A). Because N-acylated AMC (2) does not emit strong fluorescence, the detected fluorescence should correspond to the enzymatic activity (Figs. 1A-C); in this way, the enzymatic activity or inhibitory activity can be evaluated. Such assay systems based on fluorometric methods are frequently utilized in drug discovery studies.Assay systems based on fluorescent substrates are often used for evaluating the activity of histone deacetylases (HDACs).8-10) HDACs, which catalyze the deacetylation of acetyl lysine residues in histone or non-histone proteins, are an interesting molecular target of cancer therapeutic agents.
11)Many HDAC inhibitors have been identified 11,12) and some have been approved by the Food and Drug Administration (FDA). Examples include vorinostat (3) 13) and romidepsin (4) 14) for cutaneous T-cell lymphoma; belinostat (5) 15) for peripheral T-cell lymphoma; and panobinostat (6) 16) for use in the combination therapy for recurrent multiple myeloma with bortezomib and dexamethasone (Fig. 2). However, problems persist regarding the approved HDAC inhibitors, including adverse effects and limited additional indications. Therefore, explorative studies of novel HDAC inhibitors should be performed. To this end, fluoresc...