Abstract
The basic principles of the design of direct multiparticle models and the results of multiparticle computer simulation of electron transfer by mobile protein carriers in the photosynthetic membrane of a chloroplast thylakoid are presented. The reactions of complex formation of the plastocyanin with cytochrome f and the pigment-protein complex of photosystem I, as well as of ferredoxin with FNR and photosystem I are considered. The regulatory role of diffusion and electrostatic interactions as well as the effect of the shape of the reaction volume and ionic strength on the rate of electron transport are discussed.
Similar content being viewed by others
References
D. C. Pearson, Jr. and E. L. Gross, Biophys. J. 75, 2698 (1998).
R. R. Gabdoulline and R. C. Wade, Methods 14(3), 329 (1998).
F. Rienzo, R. Gabdoulline, M. Menziani, et al., Biophys. J. 81, 3090 (2001).
E. L. Gross and D. C. Pearson, Jr., Biophys. J. 85, 2055 (2003).
E. J. Haddadian and E. L. Gross, Biophys. J. 91, 2589 (2006).
I. B. Kovalenko, D. M. Ustinin, N. E. Grachev, et al., Biophysics 48, 614 (2003).
I. B. Kovalenko, A. M. Abaturova, P. A. Gromov, et al., Phys. Biol. 3, 121 (2006).
I. B. Kovalenko, A. M. Abaturova, D. M. Ustinin, et al., Biophysics 52, 481 (2007).
I. B. Kovalenko, A. N. Diakonova, A. M. Abaturova, and G. Y. Riznichenko, in Flavins and Flavoproteins International Symposium (Prensas Universitarias de Zaragoza, Zaragoza, 2008), pp. 437–442.
I. B. Kovalenko, A. M. Abaturova, P. A. Gromov, et al., Biophysics 53, 140 (2008).
G. Y. Riznichenko, N. E. Belyaeva, I. B. Kovalenko, and A. B. Rubin, Biophysics 54, 10 (2009).
A. Rubin and G. Riznichenko, in Photosynthesis in silico: Understanding Complexity from Molecules to Ecosystems, Ed. by A. Laisk, L. Nedbal, and Govindjee (Springer, Dordrecht, 2009), pp. 151–176.
A. M. Abaturova, I. B. Kovalenko, G. Y. Riznichenko, and A. B. Rubin, Komput. Issled. Modelir. 1(1), 85 (2009).
I. B. Kovalenko, A. M. Abaturova, G. Y. Riznichenko, and A. B. Rubin, Dokl. RAN 427, 696 (2009).
G. Y. Riznichenko, N. E. Belyaeva, I. B. Kovalenko, and A. B. Rubin, Biofizika 54, 16 (2009).
I. B. Kovalenko, A. N. Diakonova, A. M. Abaturova, et al., Phys. Biol. 7(2), 026001 (2010).
G. Y. Riznichenko, I. B. Kovalenko, A. M. Abaturova, et al., Biophys. Rev. 2(3), 101 (2010).
O. S. Knyazeva, I. B. Kovalenko, A. M. Abaturova, et al., Biophysics 55, 221 (2010).
I. B. Kovalenko, A. M. Abaturova, G. Y. Riznichenko, and A. B. Rubin, BioSystems 103, 180 (2011).
T. N. Vorobjeva, G. Y. Riznichenko, K. V. Shaitan, and A. B. Rubin, Studia Biophys. 100(1), 65 (1984).
G. Y. Riznichenko, T. N. Vorobjeva, E. N. Khrabrova, and A. B. Rubin, Biofizika 31, 793 (1986).
E. N. Khrabrova, T. N. Vorobjeva, G. Y. Riznichenko, and A. B. Rubin, Biofizika 33, 609 (1989).
G. Y. Riznichenko, T. N. Vorobjeva, E. N. Chrabrova, and A. B. Rubin, Photosynthetica 24(3), 37 (1990).
E. Baake and J. P. Schloder, Bull. Math. Biol. 54, 999 (1992).
J. Lavergne and H.-W. Trissl, Biophys. J. 68, 2474 (1995).
V. P. Shinkarev, Photochem. Photobiol. 67, 683 (1998).
G. V. Lebedeva, N. E. Belyaeva, G. Y. Riznichenko, et al., Zh. Fiz. Khimii 74, 1874 (2000).
A. Stirbet, Govindjee, B. J. Strasser, and R. J. Strasser, J. Theor. Biol. 193, 131 (1998).
A. D. Stirbet and R. J. Strasser, Archs des Sci. 48, 41 (1995).
A. D. Stirbet and R. J. Strasser, Math. Comp. Simulations 42, 245 (1996).
H.-W. Trissl, Y. Gao, and K. Wulf, Biophys. J. 64, 974 (1993).
H.-W. Trissl and J. Lavergne, Aust. J. Plant Physiol. 22, 183 (1994).
R. J. Strasser, M. Tsimilli-Michael, and A. Srivastava, in Chlorophyll a Fluorescence: A Signature of Photosynthesis, Ed. by G. C. Papageorgiou (Springer, Dordrecht, 2004), pp. 321–362.
X. G. Zhu, R. Govinjee, N. R. Baker, et al., Planta 223, 114 (2005).
D. Lazar, J. Theor. Biol. 220, 469 (2003).
D. Lazar, P. Ilik, J. Kruk, et al., J. Theor. Biol. 233, 287 (2005).
N. E. Belyaeva, V. Z. Paschenko, H. Renger, et al., Biophysics 51, 860 (2006).
N. E. Belyaeva, F.-J. Schmitt, R. Sreffen, et al., Photosyn. Res. 98, 105 (2008).
N. E. Belyaeva, F.-J. Schmitt, V. Z. Paschenko, et al., BioSystems 103, 188 (2011).
T. K. Antal, A. A. Volgusheva, G. P. Kukarskih, et al., Intern. J. Hydrogen Energy 34, 9087 (2009).
V. A. Bloomfield, Chapter 1. Survey of Biomolecular Hydrodynamics, On-Line Biophysics Textbook. Separations and Hydrodynamics 2000 [cited; Available from: http://www.biophysics.org/education/vbloom-field.pdf.
G. M. Ullmann and E.-W. Knapp, Eur. Biophys. J. 28, 533 (1999).
M. Ubbink, M. Ejdebeck, B. G. Karlsson, and D. S. Bendall, Structure 6, 323 (1998).
M. Medina, M. Hervas, J. A. Navarro, et al., FEBS 313, 239 (1992).
L. A. Staehelin and G. W. M. van der Staay, in Oxygenic Photosynthesis. The Light R eactions, Ed. by D. R. Ort and C. F. Yocum (Kluwer Academic Publishers, 1996), pp. 11–30.
P.-A. Albertsson, Trends Plant Sci. 6, 349 (2001).
J. A. Cruz, B. A. Salbilla, A. Kanazawa, and D. M. Kramer, Plant Physiol. 127, 1167 (2001).
J. Barber, Annu. Rev. Plant Physiol. 33, 261 (1982).
Author information
Authors and Affiliations
Additional information
Original Russian Text © G.Y. Riznichenko, I.B. Kovalenko, A.M. Abaturova, A.N. Diakonova, O.S. Knyazeva, D.M. Ustinin, S.S. Khruschev, A.B. Rubin, 2011, published in Biofizika, 2011, Vol. 56, No. 5, pp. 775–786.
Rights and permissions
About this article
Cite this article
Riznichenko, G.Y., Kovalenko, I.B., Abaturova, A.M. et al. Multiparticle computer simulation of protein interactions in the photosynthetic membrane. BIOPHYSICS 56, 757–767 (2011). https://doi.org/10.1134/S0006350911050162
Received:
Published:
Issue Date:
DOI: https://doi.org/10.1134/S0006350911050162