The cytochrome bc 1 complex (also known as ubiquinol-cytochrome c reductase or Complex III) is an essential segment of the electron transfer chains of mitochondria and many respiratory and photosynthetic bacteria (1). It catalyzes electron transfer from ubiquinol to cytochrome c with concomitant translocation of protons across the membrane to generate a proton gradient and membrane potential for ATP synthesis. The "proton-motive Q-cycle" is the most favored mechanism for electron and proton transfer in this complex (2, 3). The central feature of the Q-cycle mechanism is the bifurcation of electrons from ubiquinol at the Qo site. The first electron of ubiquinol is transferred to the "high potential chain," consisting of the Rieske [2Fe-2S] cluster, housed in the iron-sulfur protein (ISP), 1 and heme c 1 , housed in cytochrome c 1 . Then the second electron of ubiquinol is passed through the "low potential chain" consisting of heme b L and heme b H , both housed in the cytochrome b subunit.Recently, mitochondrial cytochrome bc 1 complexes from beef (4, 5), chicken (6), and yeast (7) were crystallized, and their three-dimensional structures were determined. The structural information not only supports the Q-cycle mechanism but also suggests the complex functioning as a dimer. This suggestion stems from the following structural data (4 -7): (i) the intertwining of ISPs in the two bc 1 monomers such that the head domain of ISP in one monomer is physically close to and interacting with the cytochrome b and cytochrome c 1 in the 2-fold symmetry-related other monomer; (ii) the presence of two apparently non-communicating cavities in the dimeric complex, each connecting the Qo pocket of one monomer to the Qi pocket of the other; and (iii) the distance between the Fe atoms of the two hemes b L is only 21 Å, which is approximately the same as that between heme b L and b H in one monomer (Fig. 1). The short distance between the two hemes b L and the presence of several aromatic amino acid residues at the interface of the two cytochrome b proteins has promoted investigator to speculate the existence of electron transfer or equilibrating between the two hemes b L (8 -10). Recently the existence of an intertwined dimer in solution was confirmed (11) in the Rhodobacter sphaeroides bc 1 complex through the formation of a four-subunit (two ISPs and two cytochrome bs) adduct by two inter-subunit disulfide bonds between two engineered cysteine pairs: one at cytochrome b and the head domain of ISP and the other at cytochrome b and the tail domain of ISP. However, evidence for inter-monomer b L -b L electron transfer during bc 1 catalysis is still missing, due to the lack of a suitable assay method.It has been reported that during electron transfer through the bc 1 complex, superoxide anion (O 2 . ) is produced (12-18).This results from a leakage of the second electron of ubiquinol, from the low potential chain of the Q cycle electron transfer pathway, to interact with molecular oxygen. The electron-leaking site is thought to be lo...