Journal of Zhejiang University SCIENCE
(ISSN 1009-3095, Monthly)
2005 Vol. 6B No. 10 p.948-960
Dependence of nucleotide physical properties on their placement in codons and determinative degree
BEREZHNOY A.Y.1, DUPLIJ S.A.2
(1NSC Kharkov Institute of Physics and Technology, Kharkov 61108, Ukraine)
(2Department of Physics and Technology, Kharkov National University Svoboda Sq.4, Kharkov 61077, Ukraine)
E-mail: yuberezhnoy@pht.univer.kharkov.ua; Steven.A.Duplij@univer.kharkov.ua
Received June 16, 2005; revision accepted July 7, 2005
Abstract: Various physical properties such as dipole moment, heat of formation and energy of the most stable formation of nucleotides and bases were calculated by PM3 (modified neglect of diatomic overlap, parametric method number 3) and AM1 (austin model 1) methods. As distinct from previous calculations, for nucleotides the interaction with neighbours is taken into account up to gradient of convergence equaling 1. The dependencies of these variables from the place in the codon and the determinative degree were obtained. The difference of these variables for codons and anticodons is shown.
Key words: Dipole moment, Heat of formation, Total energy, DNA, Codon, Anticodon, Determinative degree
doi:10.1631/jzus.2005.B0948 CLC number: Q34