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Brownian-dynamics simulations of protein–protein interactions in the photosynthetic electron transport chain

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Abstract

The application of Brownian dynamics for simulation of transient protein–protein interactions is reviewed. The review focuses on the theoretical basics of the Brownian-dynamics method, its particular implementations, and the advantages and drawbacks of this method. The outlook for future development of Brownian dynamics-based simulation techniques is discussed. Special attention is given to analysis of Brownian dynamics trajectories. The second part of the review is dedicated to the role of Brownian-dynamics simulations in studying photosynthetic electron transport. Interactions of mobile electron carriers (plastocyanin, cytochrome c 6, and ferredoxin) with their reaction partners (cytochrome b 6 f complex, photosystem I, ferredoxin:NADP reductase, and hydrogenase) are considered.

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  1. Department of Biology, Lomonosov Moscow State University, Moscow, 119991, Russia

    S. S. Khruschev, A. M. Abaturova, A. N. Diakonova, V. A. Fedorov, D. M. Ustinin, I. B. Kovalenko, G. Yu. Riznichenko & A. B. Rubin

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  1. S. S. Khruschev
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  2. A. M. Abaturova
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  3. A. N. Diakonova
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  4. V. A. Fedorov
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Correspondence to S. S. Khruschev.

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Original Russian Text © S.S. Khruschev, A.M. Abaturova, A.N. Diakonova, V.A. Fedorov, D.M. Ustinin, I.B. Kovalenko, G.Yu. Riznichenko, A.B. Rubin, 2015, published in Biofizika, 2015, Vol. 60, No. 2, pp. 270–292.

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Khruschev, S.S., Abaturova, A.M., Diakonova, A.N. et al. Brownian-dynamics simulations of protein–protein interactions in the photosynthetic electron transport chain. BIOPHYSICS 60, 212–231 (2015). https://doi.org/10.1134/S0006350915020086

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