Biopolym. Cell. 1988; 4(6):283-289.
Structure and Function of Biopolymers
Theoretical analysis of addressed modification of DNA
- Institute of Bioorganic Chemistry, Siberian Branch of the Academy of Sciences of the USSR
- Institute of Molecular Genetics, Academy of Sciences of the USSR
Specific chemical addressed modification of DNA involves treatment of single-stranded DNA by oligonucleotides complementary to certain target sequences in this DNA and bearing groupings reactive towards the DNA bases. The binding with the partially complementary targets can cause non-specific modification. The selectivity of the addressed modification is the subject of the present investigation. Modification of a fragment is analyzed which is flanked by two target sequences complementary to a given oligonucleotide address and contains no more such exact targets over all its length. Conditions of maximum ratio between specific and non-specific modification are calculated. The probability of the process in which up to the given time both of the target termini will be specifically modified without any non-specific modification of the internal part of a fragment is determined.
Full text: (PDF, in Russian)
 Affinity modification of biopolymers. Ed. DG Knorre. Novosibirsk, Nauka, 1983; 243 p.
 Aboul-ela F, Koh D, Tinoco I Jr, Martin FH. Base-base mismatches. Thermodynamics of double helix formation for dCA3XA3G + dCT3YT3G (X, Y = A,C,G,T). Nucleic Acids Res. 1985;13(13):4811-24.
 Craig ME, Crothers DM, Doty P. Relaxation kinetics of dimer formation by self complementary oligonucleotides. J Mol Biol. 1971;62(2):383-401.
 Porschke D, Eigen M. Co-operative non-enzymic base recognition. 3. Kinetics of the helix-coil transition of the oligoribouridylic--oligoriboadenylic acid system and of oligoriboadenylic acid alone at acidic pH. J Mol Biol. 1971;62(2):361-81.
 Porschke D, Uhlenbeck OC, Martin FH. Thermodynamics and kinetics of the helix-coil transition of oligomers containing GC base pairs. Biopolymers. 1973; 12(6):1313-1335.
 Cantor Ch, Schimmel P. Biophysical Chemistry. Moscow, Mir, 1985; Vol. 3; 534 p.
 Vedenov AA, Dykhne AM, Frank-Kamenetskii MD. The helix - coil transition in DNA. Usp Fiz Nauk. 1971; 105(3):479-519.
 Wada A, Yabuki S, Husimi Y. Fine structure in the thermal denaturation of DNA: high temperature-resolution spectrophotometric studies. CRC Crit Rev Biochem. 1980;9(2):87-144.
 Anshelevich VV, Vologodskii AV, Lukashin AV, Frank-Kamenetskii MD. Slow relaxational processes in the melting of linear biopolymers: a theory and its application to nucleic acids. Biopolymers. 1984;23(1):39-58.