Charge self-trapping in two strand biomolecules: Adiabatic polaron approach

doi:10.1088/1674-1056/ac70bc

中国物理B ›› 2023, Vol. 32 ›› Issue (1): 10506-010506.doi: 10.1088/1674-1056/ac70bc

Charge self-trapping in two strand biomolecules: Adiabatic polaron approach

D Chevizovich^1,†, S Zdravković¹, A V Chizhov^2,3, and Z Ivić^1,4,5

1 University of Belgrade, Vinča Institute of Nuclear Sciences, P. O. Box 522, Belgrade 11001, Serbia;
2 Joint Institute for Nuclear Research, Laboratory for Radiation Biology, Dubna 141980, Russia;
3 Dubna State University, Dubna 141980, Russia;
4 Department of Physics, University of Crete, P. O. Box 2208, Heraklion 71003, Greece;
5 National University of Science and Technology MISiS, Leninsky prosp. 4, Moscow 119049, Russia

收稿日期:2022-03-29 修回日期:2022-05-16 接受日期:2022-05-18 出版日期:2022-12-08 发布日期:2022-12-20
通讯作者: D Chevizovich E-mail:cevizd@vin.bg.ac.rs
基金资助:
Project supported by the Ministry of Education, Science and Technological Development of the Republic of Serbia, the Ministry of Science and Higher Education of the Russian Federation in the framework of Increase Competitiveness Program of NUST "MISiS" (Grant No. K2-2019-010), implemented by a governmental decree dated 16th of March 2013, N 211, and by the Project within the Cooperation Agreement between the JINR, Dubna, Russian Federation and Ministry of Education and Science of the Republic of Serbia.

Charge self-trapping in two strand biomolecules: Adiabatic polaron approach

D Chevizovich^1,†, S Zdravković¹, A V Chizhov^2,3, and Z Ivić^1,4,5

1 University of Belgrade, Vinča Institute of Nuclear Sciences, P. O. Box 522, Belgrade 11001, Serbia;
2 Joint Institute for Nuclear Research, Laboratory for Radiation Biology, Dubna 141980, Russia;
3 Dubna State University, Dubna 141980, Russia;
4 Department of Physics, University of Crete, P. O. Box 2208, Heraklion 71003, Greece;
5 National University of Science and Technology MISiS, Leninsky prosp. 4, Moscow 119049, Russia

Received:2022-03-29 Revised:2022-05-16 Accepted:2022-05-18 Online:2022-12-08 Published:2022-12-20
Contact: D Chevizovich E-mail:cevizd@vin.bg.ac.rs
Supported by:
Project supported by the Ministry of Education, Science and Technological Development of the Republic of Serbia, the Ministry of Science and Higher Education of the Russian Federation in the framework of Increase Competitiveness Program of NUST "MISiS" (Grant No. K2-2019-010), implemented by a governmental decree dated 16th of March 2013, N 211, and by the Project within the Cooperation Agreement between the JINR, Dubna, Russian Federation and Ministry of Education and Science of the Republic of Serbia.

摘要/Abstract

摘要： We investigate the properties of the excess charge (electron, hole) introduced into a two-strand biomolecule. We consider the possibility that the stable soliton excitation can be formed due to interaction of excess charge with the phonon subsystem. The influence of overlap of the molecular orbitals between adjacent structure elements of the macromolecular chain on the soliton properties is discussed. Special attention is paid to the influence of the overlapping of the molecular orbitals between structure elements placed on the different chains. Using the literature values of the basic energy parameters of the two-chain biomolecular structures, possible types of soliton solutions are discussed.

关键词: charge self-trapping, adiabatic polaron, soliton, two-stranded biomolecules

Abstract: We investigate the properties of the excess charge (electron, hole) introduced into a two-strand biomolecule. We consider the possibility that the stable soliton excitation can be formed due to interaction of excess charge with the phonon subsystem. The influence of overlap of the molecular orbitals between adjacent structure elements of the macromolecular chain on the soliton properties is discussed. Special attention is paid to the influence of the overlapping of the molecular orbitals between structure elements placed on the different chains. Using the literature values of the basic energy parameters of the two-chain biomolecular structures, possible types of soliton solutions are discussed.

Key words: charge self-trapping, adiabatic polaron, soliton, two-stranded biomolecules

中图分类号: (Solitons)

05.45.Yv

71.38.-k (Polarons and electron-phonon interactions) 72.10.Di (Scattering by phonons, magnons, and other nonlocalized excitations) 87.10.-e (General theory and mathematical aspects)

D Chevizovich, S Zdravković, A V Chizhov, and Z Ivić. Charge self-trapping in two strand biomolecules: Adiabatic polaron approach[J]. 中国物理B, 2023, 32(1): 10506-010506.

D Chevizovich, S Zdravković, A V Chizhov, and Z Ivić. Charge self-trapping in two strand biomolecules: Adiabatic polaron approach[J]. Chin. Phys. B, 2023, 32(1): 10506-010506.

参考文献

[1] Fröhlich H and Kremer F (ed) 1983 Coherent Excitations in Biological Systems (Berlin: Springer)
[2] Davydov A S 1982 Biology and Quantum Mechanics (New York: Pergamon Press)
[3] Petrov E G 1984 Physics of Charge Transfer in Biological Systems (Kiev: Naukova Dumka) (in Russian)
[4] Davydov A S 1985 Solitons in Molecular Systems (Dordrecht: Reidel)
[5] Scott A C 1992 Phys. Rep. 217 1
[6] Davydov A S and Kislukha N I 1973 Phys. Status. Solidi B 59 465
[7] Davydov A S and Kislukha N I 1976 Zh. Eksp. Teor. Fiz. 71 1090
[8] Christiansen P L and Scott A C (ed) 1990 Davidov's Soliton Revisited (New York: Plenum)
[9] Genereux J C, Boal A K and Barton J K 2010 J. Am. Chem. Soc. 132 891
[10] Kalosakas G 2011 Phys. Rev. E 84 051905
[11] Giese B 2000 Acc. Chem. Res. 33 631
[12] Schuster G B 2000 Acc. Chem. Res. 33 253
[13] Hu P J, Wang S X, Chen X F, Gao X H, Fang T F, Guo A M and Sun Q F 2022 Phys. Rev. Appl. 17 024074
[14] Henning D, Archilla J F R and Agarwal J 2003 Physica D 180 256
[15] Wang R, Zhang C X, Zhou Y Q and Kong L M 2011 Chin. Phys. B 20 117201
[16] Bruinsma R, Gruner G, D'Orsogna M R and Rudnick J 2000 Phys. Rev. Lett. 85 4393
[17] Ly D, Kan Y, Armitage B and Schuster G B 1996 J. Am. Chem. Soc. 118 8747
[18] Jortner J 1998 Proc. Natl. Acad. Sci. USA 95 12759
[19] Ly D, Sani L and Shuster G B 1999 J. Am. Chem. Soc. 121 9400
[20] Conwell E M and Rakhmanova S V 2000 Proc. Natl. Acad. Sci. USA 97 4556
[21] Conwell E M 2005 Proc. Natl. Acad. Sci. USA 102 8795
[22] de Pablo P J, Moreno-Herrero F, Colchero J, Gomez Herrero J, Herrero P, Baro A M, Ordejon P, Soler J M and Artacho E 2000 Phys. Rev. Lett. 85 4992
[23] Jortner J, Bixon M, Langenbacher T and Michel-Beyerle M E 1998 Proc. Natl. Acad. Sci. USA 95 12759
[24] Ye Y J, Chen R S, Martinez A, Otto P and Ladik J 1999 Solid State Commun. 112 139
[25] Yu Z G and Song X Y 2001 Phys. Rev. Lett. 86 6018
[26] Hjort M and Stafstrom S 2001 Phys. Rev. Lett. 87 228101
[27] Apalkov V, Wang X F and Chakraborty T 2007 Charge Migration in DNA: Perspectives from Physics, Chemistry and Biology (Berlin: Springer)
[28] Emin D 3973 Phys. Rev. B 33 3973
[29] Holstein T 1959 Ann. Phys. 8 325
[30] Rashba E I, in: Rashba E I, Struge M (eds) 1982 Excitons (Amsterdam: North-Holland)
[31] Davydov A S 1979 Phys. Scr. 20 387
[32] Schuttler H B and Holstein T 1986 Ann. Phys. (N.Y.) 166 93
[33] Chevizovich D, Michieletto D, Mvogo A, Zakiryanov F and Zdravkovic S 2020 R. Soc. Open. Sci. 7 200774
[34] Gogolin A A 1988 Phys. Rep. 157 347
[35] Castro Neto A H and Caldeira A O 1992 Phys. Rev. B 46 8858
[36] Cevizovic D, Ivic Z, Przulj Z, Tekic J and Kapor D 2013 Chem. Phys. 426 9
[37] Pang X F 2000 Phys. Rev. E 62 6989
[38] Brizhik L, Eremko A, Piette B and Zakrzewski W 2004 Phys. Rev. E 70 031914
[39] Cevizovic D, Galovic S, Reshetnyak A and Ivic Z 2013 Chin. Phys. B 22 060501
[40] Yoo K H, Ha D H, Lee J O, et al. 2001 Phys. Rev. Lett. 87 198102
[41] Maniadis P, Kalosakas G, Rasmussen K O and Bishop A R 2003 Phys. Rev. B 68 174304
[42] Pekar S I 1951 Issledovanaia po Elektronnoi Teorii Kristalov (Moskva: Gosteh. izd.)
[43] Brown D W and Ivić Z 1989 Phys. Rev. B 40 9876
[44] Salkola M I, Bishop A R, Kenkre V M and Raghavan S 1995 Phys. Rev. B 52 R3824
[45] Pekar S I 1946 Zh. Eksp. Teor. Fiz. 16 335
[46] Landau L D and Pekar S I 1948 Zh. Eksp. Teor. Fiz. 18 419
[47] Zekovic S, Zdravkovic S and Ivic Z 2011 J. Phys. Conf. Ser. 329 012015
[48] Hawke L, Kalosakas G and Simserides C 2010 Eur. Phys. J. E 32 291
[49] Voytuk A A, Siriwong K and Rosh N 2001 Phys. Chem. Chem. Phys. 3 5421
[50] Grozema F C, Siebbeles L D A, Berlin Y A and Ratner M A 2002 ChemPhysChem 3 536
[51] Park J H, Choi H Y and Conwell E M 2004 J. Phys. Chem. 108 19483
[52] Yamada H and Iguchi K 2010 Adv. Condens. Matter Phys. 2010 380710
[53] Kitoh-Nikioha H and Ando K 2015 Chem. Phys. Lett. 621 96
[54] Kivshar Yu S and Agrawal G P 2003 Optical Solitons from Fibers to Photonic Crystals (New York: Academic Press)
[55] Shi X, Malomed B A, Ye F and Chen X 2012 Phys. Rev. A 85 053839
[56] Kosevich Yu A, Manevitch L I and Savin A V 2008 Phys. Rev. E 77 046603
[57] Evangelides S G, Mollenauer L F, Gordon J P and Bergano N S J 1992 Lightw. Technol. 10 28
[58] Soto-Crespo J M, Akhmediev N and Ankiewicz A 1995 J. Opt. Soc. Am. B 12 1100
[59] Akhmediev N N and Ostrovskaya E A 1996 Opt. Commun. 132 190
[60] Song C Q, Xiao D M and Zhu Z N 2017 Chin. Phys. B 26 100204

Charge self-trapping in two strand biomolecules: Adiabatic polaron approach

Charge self-trapping in two strand biomolecules: Adiabatic polaron approach

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