The terminal steps involved in making ATP in mitochondria require an ATP synthase (F 0 F 1 ) comprised of two motors, a phosphate carrier (PIC), and an adenine nucleotide carrier (ANC). Under mild conditions, these entities sub-fractionate as an ATP synthase/PIC/ANC complex or "ATP synthasome" (Ko, Y.H., Delannoy, M, Hullihen, J., Chiu, W., and Pedersen, P.L. (2003) J. Biol. Chem. 278, 12305-12309). As a first step toward obtaining three-dimensional information about this large complex or "metabolon" and the locations of PIC and ANC therein, we dispersed ATP synthasomes into single complexes and visualized negatively stained images by electron microscopy (EM) that showed clearly the classical headpiece, central stalk, and basepiece. Parallel immuno-EM studies revealed the presence of PIC and ANC located non-centrally in the basepiece, and other studies implicated an ATP synthase/PIC/ANC stoichiometry near 1:1:1. Single ATP synthasome images (7506) were boxed, and, using EMAN software, a three-dimensional model was obtained at a resolution of 23 Å. Significantly, the basepiece is oblong and contains two domains, the larger of which connects to the central stalk, whereas the smaller appears as an extension. Docking studies with known structures together with the immuno-EM studies suggest that PIC or ANC may be located in the smaller domain, whereas the other transporter resides nearby in the larger domain. Collectively, these finding support a mechanism in which the entry of the substrates ADP and P i into mitochondria, the synthesis of ATP on F 1 , and the release and exit of ATP are very localized and highly coordinated events.Animal mitochondria have two major roles, one of which is to participate in cell life by making ATP by a process known as oxidative phosphorylation (1), and the other role is to participate in cell death, either by apoptosis or necrosis (2, 3). During oxidative phosphorylation the ATP synthase works in the direction of ATP synthesis, whereas during necrotic cell death the enzyme works in the direction of ATP hydrolysis (3, 4). When working in the direction of ATP synthesis in intact mitochondria, the enzyme has an absolute dependence on the P i and ADP/ATP carriers, PIC 1 and ANC, respectively (5). These carriers supply the ATP synthase with its essential substrates to make ATP, and ANC also transports ATP out of the mitochondria to energize numerous cellular processes (Fig. 1A).The ATP synthase has attracted considerable attention in recent years, not only because of its involvement in cell life and necrotic cell death, but also because of the unique and remarkable mechanism by which it makes ATP (6 -10). Although a consensus has not been reached on all points, it seems clear that the synthase consists of two nanomotors (11), one called F 1 , which is driven by ATP hydrolysis, and the other contained within F 0 , which is driven by a proton gradient. During oxidative phosphorylation in mitochondria (Fig. 1A), the electron transport chain generates a proton gradient that is purported to dr...