Biopolym. Cell. 1985; 1(4):171-179.
Structure and Function of Biopolymers
Theory of helix-coil transition of the heterogeneous DNA-heteroqeneous ligands complexes
1Akhrem A. A., 1Fridman A. S., 1Lando D. Yu.
  1. Institute of Bioorganic Chemistry, Academy of Sciences of the Byelorussian SSR
    Minsk, USSR


A theory is suggested for describing the helix-coil transition of heterogeneous DNA with a given primary structure in the presence of heterogeneous ligands which are characterized by the contact interaction with each other under adsorption on DNA, by extension and selective binding with definite sequences of base pairs. The ligand heterogeneity and the influence of boundaries between coil and helix regions on the complex melting are taken into account in the theory. An algorithm is developed for calculating the melting curve, the melting and relative concentration of ligands bound to coil and helix DNA regions as well as for other characteristics of the DNA-ligand complex.


[1] Frank-Kamenetsky MD. Consideration of the helix - coil transition in homopolymers by the most probable distribution. Mol Biol (Mosk). 1968;2(3): 408-419.
[2] Frank-Kamenetsky MD, T. Karapetyan A. Theory of melting DNA complexes with low molecular weight substances. Mol Biol (Mosk). 1972;6(4):621-627.
[3] Lando DIu, Krot VI, Frank-Kamenetskii MD. Fusion of complexes of DNA and extended ligands. Mol Biol (Mosk). 1975;9(6):856-60.
[4] Akhrem AA, Lando DIu, Krot VI. Nucleoprotein melting. I. Theory of helix-coil transition of DNA in the presence of proteins with cooperative character of interaction under conditions of reversible binding. Mol Biol (Mosk). 1976;10(6):1332-40.
[5] Akhrem AA, Lando DIu. Influence of ligands characteristic of selective binding to a certain type of base pairs on DNA helix-coil transition I. Model. Theory. Mol Biol (Mosk). 1979;13(5):1098-109.
[6] Lando DIu, Siniakin AN, Fridman AS, Andrianov VT, Akhrem AA. Influence of ligands characteristic of selective binding on DNA helix-coil transition. II. Expansion of DNA melting curves into constitutents. Inverse problem of melting of the block heterogeneity DNA. Determination of the content ratio of binding centers to DNA degree of helicity. Mol Biol (Mosk). 1980;14(1):173-81.
[7] Lando DIu, Ivanova MA, Akhrem AA. Effect of changes in the stoichiometry of DNA--ligand complexes during heat denaturation of DNA on helix-coil transition parameters. Mol Biol (Mosk). 1980;14(6):1281-8.
[8] Akhrem AA, Lando DIu. Effect of selectively reacting ligands on the helix-coil transition of DNA. III. Calculation of the melting curves of DNA-ligand complexes. Mol Biol (Mosk). 1981;15(5):1083-92.
[9] Lando DIu, Kul'ba AM, Akhrem AA. Effect of selectively reacting ligands on the helix-coil transition of DNA. IV. Heat denaturation of DNA in an acid medium. Mol Biol (Mosk). 1981;15(5):1093-1101.
[10] Akhrem AA, Lando DY Effect of ligands with selective nature of the interaction at the helix - a tangle of DNA containing satellite fraction. Vestsi BSSR, 1981, 2:13-19.
[11] McGhee JD. Theoretical calculations of the helix-coil transition of DNA in the presence of large, cooperatively binding ligands. Biopolymers. 1976;15(7):1345-75.
[12] Vedenov AA, Dykhne AM, Frank-Kamenetsky AD, Frank-Kamenetsky MD. By the theory of the helix - coil transition in DNA. Mol Biol (Mosk). 1967;1(3):313-320.
[13] Frank-Kamenetsky MD, Frank-Kamenetsky AD. Accounting double-stranded in the theory of the helix - coil transition in DNA. Mol Biol (Mosk). 1969;3(3):375-383.
[14] Lyubchenko YL, Frank-Kamenetskii MD, Vologodskii AV, Lazurkin YS, Gause GG Jr. Fine structure of DNA melting curves. Biopolymers. 1976;15(6):1019-36.
[15] Wartell R.M, Montroll EW. Equilibrium denaturation of natural and of periodic synthetic DNA molecules. Adv Chem Phys. 1972; 22:129-203.
[16] Poland D. Recursion relation generation of probability profiles for specific-sequence macromolecules with long-range correlations. Biopolymers. 1974;13(9):1859-71.
[17] Fixman M, Freire JJ. Theory of DNA melting curves. Biopolymers. 1977;16(12):2693-704.
[18] Zasedatelev AS, Gurskii GV, Vol'kenshtein MV. Theory of one-dimensional adsorption. I. Adsorption of small molecules on a homopolymer. Mol Biol. 1971;5(2):194-8.
[19] Gurskii GV, Zasedatelev AS. Precise relationships for calculating the binding of regulatory proteins and other lattice ligands in double-stranded polynucleotides. Biofizika. 1978;23(5):932-46.
[20] Lukashin AV, Vologodeskii AV, Frank-Kamenetskii MD. Letter: Comparison of different theoretical descriptions of helix-coli transition in DNA. Biopolymers. 1976;15(9):1841-4.
[21] Zasedatelev AS, Gursky GV, Volkenstein NV. Binding isotherms of small molecules to DNA. Stud biophys. 1973; 40(1):79-82.
[22] Zimm BH, Bragg JK. Theory of the phase transition between helix and random coil in polypeptide chains. J. Chem. Phys., 1959; 31(2):526-535.
[23] Flory P. Statistical mechanics of chain molecules. M. Mir, 1971. 358 p.