AUTHORS: Igor Neelov, Elena Popova
Download as PDF
ABSTRACT: Complexes of lysine dendrimer and nootropic Semax peptides were studied using molecular dynamics simulation. These dendrimers were used for drug and other molecules delivery to different cells. It was shown earlier that dendrimers and in particular lysine dendrimers could penetrate blood brain barrier. In present paper three systems containing lysine dendrimers of 2nd and 3rd generations and 8, 16 or 24 oppositely charged Semax peptides were studied. It was obtained that lysine dendrimers of both generations attracts Semax peptides and forms stable nanocomplexes with peptides. The sizes and structures of these nanocomplexes were investigated. These complexes can be used in future for delivery of Semax peptides to brain since these peptides have significant neuroprotective effects.
KEYWORDS: lysine dendrimer, Semax peptides, computer simulation, molecular dynamics
REFERENCES:
[1] E. Buhleier, W. Wehner, F. Vögtle. “Cascade”- and “nonskid chain-like” synthesis of molecular cavity topologies, Synthesis, Vol. 9, 1978, pp. 155–158.
[2] E. Abbasi et al. Dendrimers: synthesis, applications, and properties, Nanoscale Res Lett, Vol.9, 2014, pp. 247.
[3] B. J. Alder, T. E. Wainwright, International Symposium on Transport Processes in Statistical Mechanics, Eds. NY: Wiley , 1957.
[4] L.Verlet. Computer “experiments” on classical fluids. I. Thermodynamical properties of Lennard-Jones molecules, Phys.Rev., Vol. 159, 1967, pp. 98-103.
[5] A. Rahman, F. H. Stillinger. Mollecular dynamics study of temperatureeffects on water structure and kinetics, J. Chem. Phys., Vol.57, 1972, pp. 1281-1292.
[6] N. K. Balabaev, A. G. Grivtsov, and E. E. Shnol. Numerical modeling of motion of molecules, part3 , Motion of isolated polymer chain, preprint, Institute of Applied Mathematics, No. 4, 1972, pp. 38.
[7] J. P. Ryckaert, G. Ciccotti, H. J. C. Berendsen. Numerical integration of Cartesian equations of motion of a systems with constraints-molecular dynamics of n-alkanes, J.Comput.Phys., Vol.23, 1977, pp. 327-341.
[8] Y. Y. Gotlib, N. K. Balabaev, A. A. Darinskii, I. M. Neelov, Investigation of Local Motions in Polymers by the Method of Molecular Dynamics, Macromolecules, Vol.13, 1980, pp. 602–608.
[9] B. Hess, C. Kutzner, D. Spoel, E. Lindahl. “GROMACS 4: Algorithms for highly efficient, load-balanced, and scalable molecular simulation”, Journal of Chemical Theory and Computation, Vol.4, 2008, pp. 435–447.
[10] V. Hornak, R. Abel, A. Okur, D. Strockbine, A. Roitberg, C. Simmerling. “Comparison of multiple amber force fields and development of improved protein backbone parameters”, Proteins: Structure Function and Genetics, Vol. 65, 2006, pp. 712–725.
[11] I.M.Neelov, D.A.Markelov, S.G.Falkovich, M.Y.Ilyash, B.M. Okrugin, A.A.Darinskii, Mathematical Simulation of Lysine Dendriumers. Temperatiure Dependences, Polym.Sci. C, Vol.55, 2013, pp.154 -161.
[12] S. Falkovich, D. Markelov, I. Neelov, A. Darinskii, Are structural properties of dendrimers sensitive to the symmetry of branching? Computer simulation of lysine dendrimers, Journal of Chemical Physics, Vol. 139, 2013, pp. 064903.
[13] I. Neelov, S. Falkovich, D. Markelov, E. Paci, A. Darinskii, H. Tenhu. Molecular Dynamics of Lysine Dendrimers. Computer Simulation and NMR, Dendrimers in Biomedical Applications. London, Royal Society of Chemistry, 2013.
[14] I.M. Neelov, A. Janaszewska, B. Klajnert et al, Molecular properties of lysine dendrimers and their interactions with Ab-peptides and neuronal cells, Current Medical Chemistry, Vol. 20, 2013, pp. 134–143.
[15] M.A. Mazo, M.Y. Shamaev, N.K. Balabaev, I.M. Neelov, A.A. Datrinskii, Conformational mobility of carbosilane dendrimer: Molecular dynamics simulation, Physical Chemistry and Chemical Physics,Vol. 6, 2015, pp. 1285-1289.
[16] I.M. Neelov., A.A.Mistonova, A.Y.Khvatov, V.V.Bezrodnij. Molecular dynamics simulation of peptide polyelectrolytes, Scientific and Technical Journal of Information Technologies, Mechanics and Optics, Vol. 92, № 4, 2014, pp. 169–175.
[17] D. A Markelov, S. G Falkovich, I. M Neelov, M. Yu Ilyash, V. V Matveev, E. Lahderanta, P. Ingman, A. A Darinskii, Molecular Dynamics Simulation of Spin-lattice NMR Relaxation in Poly-L-lysine Dendrimers. Manifestation of the Semiflexibility Effect, Physical Chemistry and Chemical Physics, Vol.17, 2015, pp.3214-3226
[18] J. Ennari, M. Elomaa, I. Neelov, F. Sundholm, Modelling of water free and water containing solid polyelectrolytes, Polymer, Vol. 41, 2000, pp. 985-990.
[19] J. Ennari, I. Neelov, F. Sundholm Comparison of Cell Multipole and Ewald Summation Methods for Solid Polyelectrolyte, Polymer, Vol. 41, 2000, pp. 2149-2155.
[20] J. Ennari, I. Neelov, F. Sundholm, Molecular Dynamics Simulation of the PEO Sulfonic Acid Anion in Water, Comput. Theor. Polym.Sci., Vol. 10, 2000, pp. 403-410.
[21] J. Ennari, I. Neelov, Molecular dynamics simulation of the structure of PEO based solid polymer electrolytes, Polymer, Vol. 41, 2000, pp. 4057-4063.
[22] J. Ennari, I. Neelov, F. Sundholm, Estimation of the ion conductivity of a PEO-based polyelectrolyte system by molecular modeling, Polymer, Vol. 42, 2001, pp. 8043–8050.
[23] J. Ennari, I. Neelov, F. Sundholm, Modellling of gas transport properties of polymer electrolytes containing various amount of water, Polymer, Vol. 45, 2004, pp.4171-4179.
[24] V. Sadovnichy, A. Tikhonravov, V. Voevodin, V.Opanasenko, Contemporary High Performance Computing: From Petascale toward Exascale, Boca Raton, USA, 2013.