Some natural acetogenins are the most potent inhibitors of mitochondrial complex I. These compounds are characterized by two functional units [i.e. hydroxylated tetrahydrofuran (THF) and a,b-unsaturated g-lactone ring moieties] separated by a long alkyl spacer. To elucidate which structural factors of acetogenins, including their active conformation, are crucial for the potent inhibitory activity we synthesized a novel bis-acetogenin and its analogues possessing two g-lactone rings connected to bis-THF rings by flexible alkyl spacers. The inhibitory potency of the bis-acetogenin with bovine heart mitochondrial complex I was identical to that of bullatacin, one of the most potent natural acetogenins. This result indicated that one molecule of the bis-acetogenin does not work as two reactive inhibitors, suggesting that a g-lactone and the THF ring moieties act in a cooperative manner on the enzyme. In support of this, either of the two ring moieties synthesized individually showed no or very weak inhibitory effects. Moreover, combined use of the two ring moieties at various molar ratios exhibited no synergistic enhancement of the inhibitory potency. These observations indicate that both functional units work efficiently only when they are directly linked by a flexible alkyl spacer. Therefore, some specific conformation of the spacer must be important for optimal positioning of the two units in the enzyme. Furthermore, the a,b-unsaturated g-lactone, the 4-OH group in the spacer region, the long alkyl tail attached to the THF unit and the stereochemistry surrounding the hydroxylated bis-THF rings were not crucial for the activity, although these are the most common structural features of natural acetogenins. The present study provided useful guiding principles not only for simplification of complicated acetogenin structure, but also for further wide structural modifications of these molecules.Keywords: acetogenins; mitochondria; NADH-ubiquinone oxidoreductase; respiratory inhibitor; structure± activity relationship.A large number of natural acetogenins have been isolated from several genera of the plant family Annonaceae [1]. Many of these compounds have very potent and diverse biological effects such as cytotoxic, antitumour, anti-malarial, pesticidal and anti-feedant activities [2±4]. In particular, the inhibitory effect of acetogenins on mitochondrial NADH-ubiquinone oxidoreductase (complex I) is worthy of note for the following reasons: (a) the diverse biological activities are thought to be attributable to this effect [1,4±7]; (b) some of the compounds, such as bullatacin (Fig. 1), are the most potent inhibitors of the enzyme identified to date [5,7,8]; and (c) it is quite difficult to visualize structural similarities between the acetogenins and ordinary complex I inhibitors such as piericidin A and rotenone, although the acetogenins act at the terminal electron transfer step of complex I (i.e. between Fe±S cluster 2 and the ubiquinone pool) similarly to the ordinary complex I inhibitors [8,9].The acetogenins ...