title: Triple helix formation with oligodeoxyribonucleotides containing 8-oxo-2'-deoxyadenosine and 2'-modified nucleoside derivatives.
abstract: The ability of homopyrimidine oligonucleotides containing 8-oxo-2'-deoxyadenosine (dAOH) and/or 2'-methoxyuridine (Um) or 2'-fluorouridine (Uf) to form stable, triple helical structures with the sequences containing the recognition site for the class II-S restriction enzyme, Ksp632-I, was studied as a function of pH. The 8-oxo-2'-deoxyadenosine substituted oligomers were shown to bind within the physiological pH range in a pH-independent fashion, without a compromise specificity. On the other hand, the oligonucleotides containing 2'-modified nucleosides (Uf ,Um, dAOH-Um, and dAOH-Uf) bind in a pH-dependent mannerto the target duplex.
authors.affiliation: Department of Industrial Chemistry, Chiba Institute of Technology, Japan.
authors.forename: T
authors.initials: T
authors.lastname: Ishibashi
authors.forename: H
authors.initials: H
authors.lastname: Yamakawa
authors.forename: Q
authors.initials: Q
authors.lastname: Wang
authors.forename: S
authors.initials: S
authors.lastname: Tsukahara
authors.forename: K
authors.initials: K
authors.lastname: Takai
authors.forename: T
authors.initials: T
authors.lastname: Maruyama
authors.forename: H
authors.initials: H
authors.lastname: Takaku
mesh_terms: D001665:Binding Sites; D004279:DNA, Viral / Q000737:chemistry / Q000235:genetics; D003839:Deoxyadenosines / Q000737:chemistry; D015252:Deoxyribonucleases, Type II Site-Specific / Q000378:metabolism; D006863:Hydrogen-Ion Concentration; D015394:Molecular Structure; D009690:Nucleic Acid Conformation; D009838:Oligodeoxyribonucleotides / Q000737:chemistry*; D013539:Simian virus 40 / Q000235:genetics; D013379:Substrate Specificity; D013696:Temperature; D014529:Uridine / Q000031:analogs & derivatives / Q000737:chemistry
chemical_list: D004279:DNA, Viral; D003839:Deoxyadenosines; D009838:Oligodeoxyribonucleotides; C078251:2'-deoxy-7,8-dihydro-8-oxoadenosine; C057073:endodeoxyribonuclease Ksp632I; D015252:Deoxyribonucleases, Type II Site-Specific; D014529:Uridine