Elucidating the structures of intermediates in the reduction of O 2 to water by cytochrome c oxidase is crucial to understanding both oxygen activation and proton pumping by the enzyme. In the work here, the reaction of O 2 with the mixed-valence enzyme, in which only heme a 3 and Cu B in the binuclear center are reduced, has been followed by time-resolved resonance Raman spectroscopy. The results show that OAO bond cleavage occurs within the first 200 s after reaction initiation; the presence of a uniquely stable FeOOOO(H) peroxy species is not detected. The product of this rapid reaction is a heme a 3 oxoferryl (Fe IV AO) species, which requires that an electron donor in addition to heme a 3 and Cu B must be involved. The available evidence suggests that the additional donor is an amino acid side chain. Recent crystallographic data [Yoshikawa, S., Shinzawa-Itoh, K., Nakashima, R., Yaono, R., Yamashita, E.
OOH؊ , and the tyrosyl radical. This mechanism provides molecular structures for two key intermediates that drive the proton pump in oxidase; moreover, it has clear analogies to the proposed OOO bond forming chemistry that occurs during O 2 evolution in photosynthesis.The molecular mechanism of dioxygen activation and reduction by the terminal respiratory enzyme, cytochrome c oxidase (CcO), is accessible because of its unique kinetic properties. Elucidation of this mechanism is of fundamental importance in understanding O 2 chemistry in biological systems and necessary for insight into the function of the protein as a redox-linked proton pump. CcO uses four redox-active metal centers, Cu A , heme a, and the heme a 3 ͞Cu B binuclear center, to sustain mitochondrial electron transport by reducing molecular oxygen to water. This reaction ensures a constant flow of electrons through the respiratory chain and the coupled generation of a proton gradient across the mitochondrial membrane, which is required for ATP synthesis. The oxygen chemistry catalyzed by CcO contributes directly to the build-up of the proton gradient because of its redox-linked proton pumping function (1). Thus, the overall reaction catalyzed by CcO may be written aswhere H in ϩ and H out ϩ indicate protons on the matrix (in) and cytosolic (out) sides of the membrane. Because its reaction kinetics is controlled by its proton-pumping function, unique insights into oxygen activation mechanisms are possible (2, 3).A number of reaction intermediates in dioxygen reduction have been identified recently (3, 4). Nonetheless, the timing and mechanism of the critical OAO bond cleavage process in the heme a 3 ͞Cu B binuclear center and the structure of a key intermediate at the peroxy level are poorly understood. In one model, a heme-peroxy adduct [Fe a3 III OOOO(H)] is uniquely stable (2,3,(5)(6)(7)(8). This model contrasts with peroxidases (9) and catalases (10), in which the peroxy OOO bond is spontaneously cleaved to yield an oxoferryl (Fe IV AO) product and a radical. Recent Raman work on the reaction of CcO with H 2 O 2 provided an alternati...