Rieske head domain dynamics and indazole-derivative inhibition of <i>Candida albicans</i> complex III

Trani, Di; Liu, Ming; Whitesell, Luke; Brzezinski, Peter; Cowen,; Rubinstein, John L.

doi:10.1101/2021.05.18.444650

Cited by 1 publication

(5 citation statements)

References 68 publications

(126 reference statements)

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“…albicans cyt. bc 1 several classes of particles were observed in which the FeS head domain is either in the B position, C position, or in between these positions, suggesting a statistical distribution of these states, which is consistent with spectroscopic data . Similarly, in the cryo-EM structure of the R.…”

Section: Complex IIIsupporting

confidence: 82%

“…radiata, both FeS domain positions were observed in the absence of bound Q in the Q P site . Hence, all these data suggest that the position of the FeS ectodomain is stochastic when the Q P site is empty or occupied by an oxidized Q. ,,, On the other hand, binding of a reduced hydroquinone in the Q P site when the FeS cluster is oxidized may shift the equilibrium of the FeS domain toward the B position, similarly to binding of stigmatellin. ,− …”

Section: Complex IIImentioning

confidence: 86%

“…In another recent cryo-EM structure of complex III 2 from C. albicans, density for a UQ was found in both Q P sites of the dimer (as well as in the Q N sites), although at low occupancy …”

Section: Complex IIImentioning

confidence: 94%

“…Structural studies with different types of inhibitors bound in the Q P site indicate that the position of the FeS ectodomain depends on its interactions with the inhibitor as well as minor structural changes caused by the inhibitor binding. ,,,− There are two classes of Q P -site inhibitors referred to as P f ( f for fix) and P m ( m for mobile), respectively. The P f class of inhibitors, such as the UQ analogue stigmatellin, fix the FeS ectodomain in the B position, presumably due to formation of a hydrogen bond between the inhibitor and the FeS ectodomain.…”

Section: Complex IIImentioning

confidence: 99%

“…The P m class of inhibitors, such as, e.g., myxothiazol or azoxystrobin, displace the FeS ectodomain from the B position yielding a mobile domain that adopts different positions, including the C position. A recent cryo-EM study with the P m -type fungal complex III 2 inhibitor Inz-5 revealed the distribution of these positions …”

Section: Complex IIImentioning

confidence: 99%

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Structure and Mechanism of Respiratory III–IV Supercomplexes in Bioenergetic Membranes

2021

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In the final steps of energy conservation in aerobic organisms, free energy from electron transfer through the respiratory chain is transduced into a proton electrochemical gradient across a membrane. In mitochondria and many bacteria, reduction of the dioxygen electron acceptor is catalyzed by cytochrome c oxidase (complex IV), which receives electrons from cytochrome bc 1 (complex III), via membrane-bound or watersoluble cytochrome c. These complexes function independently, but in many organisms they associate to form supercomplexes. Here, we review the structural features and the functional significance of the nonobligate III 2 IV 1/2 Saccharomyces cerevisiae mitochondrial supercomplex as well as the obligate III 2 IV 2 supercomplex from actinobacteria. The analysis is centered around the Q-cycle of complex III, proton uptake by CytcO, as well as mechanistic and structural solutions to the electronic link between complexes III and IV. CONTENTS 1. Introduction 9645 2. Complex III 9648 2.1. Catalytic Reaction and Quinone Binding 9649 2.2. The Bifurcated Electron Transfer 9650 2.2.1. Canonical Complex III 9650 2.2.2. M. smegmatis and C. glutamicum Supercomplexes 9651 2.3. Proton Release from the Q P Site 9651 2.3.1. Canonical Complex III 9651 2.3.2. M. smegmatis and C. glutamicum Supercomplexes 9651 3. Complex IV 9652 3.1. The Core Subunits 9653 3.2. The Catalytic Reaction and Proton Pathways 9653 3.3. Peripheral subunits of the S. cerevisiae CytcO 9654 3.4. The M. smegmatis CytcO 9654 3.5. Nonredox Active Metal Sites 9655 3.6. The Putative CytcO Dimer 9655 4. Complex III−IV Supercomplexes 9656 4.1. The S. cerevisiae Supercomplex 9656 4.2. Other (I)III 2 IV 1/2 Supercomplexes 9656 4.3. Cardiolipin in Supercomplexes 9657 4.4. Respiratory Supercomplex Factors 9658 4.5. Superoxide Dismutase in the M. smegmatis Supercomplex 9658 5. Interaction of Complexes III 2 and IV with Cytochrome c 9659 5.1. Cyt. c Binding to Complexes III and IV 9659 5.2. The Electronic Link between Complexes III and IV 5.2.1. Diffusion in 3D 5.2.2. Diffusion in 2D 5.2.3. Effects of Cox5/cyt. c Isoforms 5.2.4. Binding of cyt. c to Rcf1 6. Why Supercomplexes? 6.1. Changes in Structure or Activity upon Formation of Supercomplexes 6.2. Protein Distribution and Aggregation 6.3. Production of ROS 6.4. Free Energy Conservation 6.5. The Redox State and Binding of cyt. c

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Section: Complex IIIsupporting

confidence: 82%

Section: Complex IIImentioning

confidence: 86%

“…In another recent cryo-EM structure of complex III 2 from C. albicans, density for a UQ was found in both Q P sites of the dimer (as well as in the Q N sites), although at low occupancy …”

Section: Complex IIImentioning

confidence: 94%