Geodesic
DNA–ligand complexes melting: the effect of multiple binding mechanisms
Proceedings of the Yerevan State University. Physical and mathematical sciences, no. 1 (2016), pp. 52-57.

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Helix–coil transition of complexes DNA with two ligands of different binding mechanisms to native and melted regions of biopolymer is considered using the most probable distribution method. It was shown that obtained biphasic behavior of helix–coil transition curves depends on both binding affinity and concentration of ligands in solution. Thermodynamic behavior of the ligands having higher and lower affinity to the native DNA is compared.
Keywords: Helix–coil transition; biphasic denaturation; multiple binding. 
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Z. A. Grigoryan. DNA–ligand complexes melting: the effect of multiple binding mechanisms. Proceedings of the Yerevan State University. Physical and mathematical sciences, no. 1 (2016), pp. 52-57. http://geodesic.mathdoc.fr/item/UZERU_2016_1_a8/

[1] A.A. Vedenov, A.M. Dykhne, M.D. Frank-Kamenetskii, “The Helix–Coil Transition in DNA”, Usp. Fiz. Nauk, 105 (1971), 479–519 (in Russian) | DOI

[2] D.C. Poland, H.A. Scheraga, The Theory of Helix–Coil Transition, Academic, NY, 1970

[3] T. Chalikian, “Hydrophobic Tendencies of Polar Groups as a Major Force in Molecular Recognition”, Biopolymers, 70 (2003), 492–496 | DOI

[4] T. Garel, C. Monthus, H. Orland, “A Simple Model for DNA Denaturation”, EPL, 55 (2001), 132–138 | DOI

[5] D. Cule, T. Hwa, “Denaturation of Heterogeneous DNA”, Phys. Rev. Lett., 79 (1997), 2375–2378 | DOI

[6] M. Barbi, S. Lepri, M. Peyrard, N. Theodorakopoulos, “Thermal Denaturation of a Helicoidal DNA Model”, Phys. Rev. E, 68 (2003), 61909 | DOI

[7] M. Takano, K. Nagayama, A. Suyama, “Investigating a Link between All-Atom Model Simulation and the Ising-Based Theory on the Helix–Coil Transition: Equilibrium Statistical Mechanics”, J. Chem. Phys., 116 (2002), 2219 | DOI

[8] V. Munoz, L. Serrano, “Development of the Multiple Sequence Approximation within the AGADIR Model of $\alpha$-Helices Formation: Comparison with Zimm-Bragg and Lifson-Roig Formalisms”, Biopolymers, 41 (1997), 495–509 | 3.0.CO;2-H class='badge bg-secondary rounded-pill ref-badge extid-badge'>DOI

[9] R.M. Wartell, A.S. Benight, “Thermal Denaturation of DNA Molecules: A Comparison of Theory with Experiment”, Phys. Rep., 126 (1985), 67–107 | DOI

[10] D. Poland, H.A. Scheraga, “Phase Transitions in One Dimension and the Helix–Coil Transition in Polyamino Acids”, J. Chem. Phys., 45 (1966), 1456–1463 | DOI

[11] M.D. Frank-Kamenetskii, “Biophysics of the DNA Molecule”, Phys. Rep., 288 (1998), 13–59 | DOI

[12] A.T. Karapetian, N.M. Mehrabian, G.A. Terzikian, P.O. Vardevanian, A.P. Antonian, O.F. Borisova, M. Frank-Kamenetskii, “Theoretical Treatment of Melting of Complexes of DNA with Ligands Having Several Types of Binding Sites on Helical and Single Stranded DNA”, J. Biomol. Struct. Dyn., 14:2 (1996), 275–283 | DOI

[13] A.T. Karapetian, Z.A. Grigoryan, Y.S. Mamasakhlisov, M.V. Minasyants, “Theoretical Treatment of Helix–Coil Transition of Complexes DNA with Two Different Ligands Having Different Binding Parameters”, J. Biomol. Struct. Dyn., 34 (2016), 201–205 | DOI

[14] Z.A. Grigoryan, Y.Sh. Mamasakhlisov, A.T. Karapetian et al., “Orientation Order in DNA-Containing Polymer Composites: the Melting Effect”, NAS Armenia Reports, 114 (2014), 123–130 (in Russian)

[15] J. SantaLucia Jr., “An Unified View of Polymer, Dumbbell, and Oligonucleotide DNA Nearest-Neighbor Thermodynamics”, Proc. Natl. Acad. Sci. USA, 95 (1998), 1460–1465 | DOI