Thermodynamic and kinetic analyses of DNA triplex formation: application of filter-binding assay.
We have developed a simple and efficient method for studying equilibrium thermodynamics and kinetics of DNA triplex formation, which utilizes a filter-binding procedure. The application of this method to the triplex formation between a double-stranded homopurine-homopyrimidine and a single-stranded homopyrimidine oligonucleotides has demonstrated its ability in the quantitative estimation of equilibrium binding constants and rate constants under various conditions. Thus, this simple method can serve as a powerful tool for the systematic analysis of sequence and environmental effects on the equilibrium and kinetic quantities in the triplex formation.
Sarai
A
A
Tsukuba Life Science Center, Institute of Chemical Physical and Chemical Research (RIKEN), Ibaraki, Japan.
Sugiura
S
S
Torigoe
H
H
Shindo
H
H
D001483:Base Sequence; D001665:Binding Sites; D004247:DNA / Q000096:biosynthesis / Q000737:chemistry* / Q000648:ultrastructure; D007700:Kinetics; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D011687:Purines / Q000378:metabolism; D011743:Pyrimidines / Q000378:metabolism; D013816:Thermodynamics
D011687:Purines; D011743:Pyrimidines; C051802:triplex DNA; D004247:DNA; C030986:pyrimidine