Abstract
In the present contribution we study the absorption and steady-state fluorescence spectra for ring molecular system, which can model B850 ring of peripheral light-harvesting complex LH2 from purple bacterium Rhodopseudomonas acidophila (Rhodoblastus acidophilus). LH2 is a highly symmetric ring of nine pigment-protein subunits, each containing two transmembrane polypeptide helixes and three bacteriochlorophylls (BChl). The uncorrelated diagonal static disorder with Gaussian distribution (fluctuations of local excitation energies) simultaneously with the diagonal dynamic disorder (interaction with a bath) in Markovian approximation is used in our simulations. We compare calculated absorption and steady state fluorescence spectra obtained within the full Hamiltonian model of the B850 ring with our previous results calculated within the nearest neighbour approximation model and also with experimental data.
References
G. McDermott et al., Nature 374, 517 (1995)
M.Z. Papiz et al., J. Mol. Biol. 326, 1523 (2003)
A. Damjanovic et al., Phys. Rev. E 65, 031919 (2002)
M.K. Sener, K. Schulten, Phys. Rev. E 65, 031916 (2002)
Y. Zhao, M.F. Ng, Phys. Rev. E 69, 032902 (2004)
J. Ye et al., J. Chem. Phys. 136, 245104 (2012)
R. Kumble, R. Hochstrasser, J. Chem. Phys. 109, 855 (1998)
V. Nagarajan et al., Proc. Natl. Acad. Sci. USA 93, 13774 (1996)
V. Nagarajan et al., J. Phys. Chem. B 103, 2297 (1999)
V. Nagarajan, W.W. Parson, J. Phys. Chem. B 104, 4010 (2000)
V. Čápek, I. Barvík, P. Heřman, Chem. Phys. 270, 141 (2001)
P. Heřman, I. Barvík, Chem. Phys. 274, 199 (2001)
P. Heřman, I. Barvík, M. Urbanec, J. Lumin. 108, 85 (2004)
P. Heřman et al., J. Lumin. 94-95, 447 (2001)
P. Heřman, I. Barvík, Czech. J. Phys. 53, 579 (2003)
P. Heřman, I. Barvík, Phys. Stat. Sol. C 3, 3408 (2006)
P. Heřman et al., Chem. Phys. 275, 1 (2002)
P. Heřman, I. Barvík, J. Lumin. 122–123, 558 (2007)
P. Heřman, D. Zapletal, I. Barvík, J. Lumin. 128, 768 (2008)
P. Heřman, I. Barvík, D. Zapletal, Lect. Notes Comput. Sci. 5101, 661 (2008)
P. Heřman, D. Zapletal, J. Šlégr, Physics Procedia 13, 14 (2011)
P. Heřman, D. Zapletal, M. Horák, in Proceedings of the 5th International Conference on Advanced Engineering Computing and Applications in Sciences (ADVCOMP2011) Lisbon, 2011, pp. 1–6
D. Zapletal, P. Heřman, in Proceedings of the 13th WSEAS International Conference on Mathematical and Computational Methods in Science and Engineering (MACMESE ’11) Athens, 2011 (WSEAS Press), pp. 182−187
D. Zapletal, P. Heřman, Int. J. Math. Comp. Sim. 6, 144 (2012)
M. Horák, P. Heřman, D. Zapletal, Advances in Mathematical and Computational Methods, in Proceedings of the 14th WSEAS International Conference on Mathematical and Computational Methods in Science and Engineering (MACMESE ’12) Athens, 2012 (WSEAS Press), pp. 97–102
M. Horák, P. Heřman, D. Zapletal, Int. J. Math. Comp. Sim. 7, 85 (2013)
P. Heřman, D. Zapletal, Recent Advances in Information Science, Proceedings of the 3rd European Conference of Computer Science (ECCS ’12) Athens, 2012 (WSEAS Press), pp. 79−84
S. Mukamel, Principles of Nonlinear Optical Spectroscopy (Oxford University Press, New York, 1995)
W.M. Zhang et al., J. Chem. Phys. 108, 7763 (1998)
V.I. Novoderezhkin, D. Rutkauskas, R. van Grondelle, Biophys. J. 90, 2890 (2006)
A.G. Redfield, Adv. Magn. Reson. 1, 1 (1965)
D. Rutkauskas et al., Biophys. J. 88, 422 (2005)
D. Rutkauskas et al., Biochemistry 43, 4431 (2004)
V. May, O. Kühn, Charge and Energy Transfer in Molecular Systems (Wiley-WCH, Berlin, 2000)
O. Zerlauskiene et al., J. Phys. Chem. B 112, 15883 (2008)
P. Heřman, D. Zapletal, I. Barvík, in Proceedings of the IEEE 12th International Conference on Computational Science and Engineering (CSE ’09) Vancouver, 2009, pp. 437−442
P. Heřman, I. Barvík, D. Zapletal, J. Lumin. 119-120, 496 (2006)
C. Hofmann, T.J. Aartsma, J. Köhler, Chem. Phys. Lett. 395, 373 (2004)
S. Wolfram, The Mathematica Book, 5th edn. (Wolfram Media, 2003)
Author information
Authors and Affiliations
Corresponding author
Additional information
Contribution to the Topical Issue “Excitonic Processes in Condensed Matter, Nanostructured and Molecular Materials”, edited by Maria Antonietta Loi, Jasper Knoester and Paul H. M. van Loosdrecht.
Rights and permissions
About this article
Cite this article
Heřman, P., Zapletal, D. & Horák, M. Emission spectra of LH2 complex: full Hamiltonian model. Eur. Phys. J. B 86, 215 (2013). https://doi.org/10.1140/epjb/e2013-30586-5
Received:
Revised:
Published:
DOI: https://doi.org/10.1140/epjb/e2013-30586-5