Computational study of the activated O H state in the catalytic mechanism of cytochrome c oxidase

• Published in: Proceedings of the National Academy of Sciences - PNAS 2013-10, Vol.110 (42), p.16844-16849
• Main Authors: Sharma, Vivek, Karlin, Kenneth D., Wikström, Mårten
• Format: Article
• Language: English
• ISSN: 0027-8424; 1091-6490
• DOI: 10.1073/pnas.1220379110

Density functional theory studies on the O H state in the catalytic mechanism of cytochrome c oxidase are performed. The proposed structure of O H state and its calculated characteristics are found to comply with the experimental data. The presented hypothesis solves, at least in part, the dilemma of the O H and O states in the catalytic mechanism of cytochrome oxidase. Complex IV in the respiratory chain of mitochondria and bacteria catalyzes reduction of molecular oxygen to water, and conserves much of the liberated free energy as an electrochemical proton gradient, which is used for the synthesis of ATP. Photochemical electron injection experiments have shown that reduction of the ferric/cupric state of the enzyme’s binuclear heme a 3 /Cu B center is coupled to proton pumping across the membrane, but only if oxidation of the reduced enzyme by O 2 immediately precedes electron injection. In contrast, reduction of the binuclear center in the “as-isolated” ferric/cupric enzyme is sluggish and without linkage to proton translocation. During turnover, the binuclear center apparently shuttles via a metastable but activated ferric/cupric state (O H ), which may decay into a more stable catalytically incompetent form (O) in the absence of electron donors. The structural basis for the difference between these two states has remained elusive, and is addressed here using computational methodology. The results support the notion that Cu B [II] is either three-coordinated in the O H state or shares an OH − ligand with heme a 3 in a strained μ-hydroxo structure. Relaxation to state O is initiated by hydration of the binuclear site. The redox potential of Cu B is expected, and found by density functional theory calculations, to be substantially higher in the O H state than in state O. Our calculations also suggest that the neutral radical form of the cross-linked tyrosine in the binuclear site may be more significant in the catalytic cycle than suspected so far.