Heat shock protein (Hsp)90 is emerging as an important therapeutic target for the treatment of cancer. Two analogues of the Hsp90 inhibitor geldanamycin are currently in clinical trials. Geldanamycin (GA) and its analogues have been reported to bind purified Hsp90 with low micromolar potency, in stark contrast to their low nanomolar antiproliferative activity in cell culture and their potent antitumor activity in animal models. Several models have been proposed to account for the Ϸ100-fold-greater potency in cell culture, including that GA analogues bind with greater affinity to a five-protein Hsp90 complex than to Hsp90 alone. We have determined that GA and the fluorescent analogue BODIPY-GA (BDGA) both demonstrate slow, tight binding to purified Hsp90. BDGA, used to characterize the kinetics of ligand-Hsp90 interactions, was found to bind Hsp90␣ with k off ؍ 2.5 ؋ 10 ؊3 min ؊1 , t 1/2 ؍ 4.6 h, and Ki* ؍ 10 nM. It was found that BDGA binds to a functional multiprotein Hsp90 complex with kinetics and affinity identical to that of Hsp90 alone. Also, BDGA binds to Hsp90 from multiple cell lysates in a time-dependent manner with similar kinetics. Therefore, our results indicate that the high potency of GA in cell culture and in vivo can be accounted for by its timedependent, tight binding to Hsp90 alone. In the broader context, these studies highlight the essentiality of detailed biochemical characterization of drug-target interactions for the effective translation of in vitro pharmacology to cellular and in vivo efficacy.benzoquinone ansamycin ͉ time-dependent inhibition ͉ BODIPY-geldananmycin H eat shock protein (Hsp)90 is a ubiquitous, highly expressed molecular chaperone protein capable of sensing cellular stress (1). In cells, Hsp90 functions as a multiprotein chaperone complex, with cochaperones that include Hsp70, Hsp40, and Hop (2). Upon ATP binding and hydrolysis, this intermediate complex forms a mature chaperone complex containing p23, which catalyzes the conformational maturation of ''client protein'' substrates (3, 4). Multiple client proteins of the Hsp90 chaperone complex are involved in signal-transduction pathways, cell-cycle regulation, and apoptosis pathways commonly deregulated in cancer (5, 6). Although essential for cellular viability, the pharmacological inhibition of this chaperone has emerged as an attractive approach for inhibition of tumorigenesis (7-10).The natural product geldanamycin (GA), a benzoquinone ansamycin, binds to Hsp90, inhibits its ATPase activity (11), and decreases cellular levels of client proteins involved in cancer cell survival, such as mutated p53, mutated B-Raf, Akt, Bcr-Abl, and ErbB2 (10). GA has potent antiproliferative activity in many cell lines in culture (12) and inhibits tumor growth in mouse xenograft models (10). Two GA analogues, 17-allylamino,17-demethoxygeldanamycin (17-AAG) and , are currently in multiple clinical trials for the treatment of cancer (7, 13, 14).GA binds to the N-terminal ATP-binding domain of Hsp90 and inhibits ATP binding and ATP...