5T7H

Crystal structure of dimeric yeast iso-1-cytochrome C with CYMAL6

5T7H の概要

• エントリーDOI: 10.2210/pdb5t7h/pdb
• 分子名称: Cytochrome c iso-1, SULFATE ION, 6-cyclohexylhexan-1-ol, ... (5 entities in total)
• 機能のキーワード: cytochrome c, peroxidase activity, cymal6, electron transport
• 由来する生物種: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 52599.30

構造登録者

Mcclelland, L.,Mou, T.C.,Sprang, S.R.,Bowler, B.E. (登録日: 2016-09-05, 公開日: 2017-03-22, 最終更新日: 2024-10-30)

主引用文献

McClelland, L.J.,Steele, H.B.,Whitby, F.G.,Mou, T.C.,Holley, D.,Ross, J.B.,Sprang, S.R.,Bowler, B.E.
Cytochrome c Can Form a Well-Defined Binding Pocket for Hydrocarbons.
J. Am. Chem. Soc., 138:16770-16778, 2016

PubMed Abstract: Cytochrome c can acquire peroxidase activity when it binds to cardiolipin in mitochondrial membranes. The resulting oxygenation of cardiolipin by cytochrome c provides an early signal for the onset of apoptosis. The structure of this enzyme-substrate complex is a matter of considerable debate. We present three structures at 1.7-2.0 Å resolution of a domain-swapped dimer of yeast iso-1-cytochrome c with the detergents, CYMAL-5, CYMAL-6, and ω-undecylenyl-β-d-maltopyranoside, bound in a channel that places the hydrocarbon moieties of these detergents next to the heme. The heme is poised for peroxidase activity with water bound in place of Met80, which serves as the axial heme ligand when cytochrome c functions as an electron carrier. The hydroxyl group of Tyr67 sits 3.6-4.0 Å from the nearest carbon of the detergents, positioned to act as a relay in radical abstraction during peroxidase activity. Docking studies with linoleic acid, the most common fatty acid component of cardiolipin, show that C11 of linoleic acid can sit adjacent to Tyr67 and the heme, consistent with the oxygenation pattern observed in lipidomics studies. The well-defined hydrocarbon binding pocket provides atomic resolution evidence for the extended lipid anchorage model for cytochrome c/cardiolipin binding. Dimer dissociation/association kinetics for yeast versus equine cytochrome c indicate that formation of mammalian cytochrome c dimers in vivo would require catalysis. However, the dimer structure shows that only a modest deformation of monomeric cytochrome c would suffice to form the hydrocarbon binding site occupied by these detergents.

PubMed: 27990813
DOI: 10.1021/jacs.6b10745

実験手法

X-RAY DIFFRACTION (2.003 Å)