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We have prepared the 2'-aminoethoxy derivative of the S nucleoside ((2AE)S) and incorporated it into triplex-forming oligonucleotides for recognition of TA interruptions within a target oligopurine tract. Fluorescence melting, UV melting, and DNase I footprinting experiments show that (2AE)S has greater affinity than G or S for a single TA interruption. Stable triplexes are formed at pH 6.0 at an 18-mer target site containing two TA interruptions, even though this contains eight C(+).GC triplets. Although (2AE)S and S produce stable triplexes at TA interruptions, they also interact with other base pairs, in particular, CG, although the selectivity for TA improves with increased pH.( 2AE)S is the best nucleoside described so far for recognition of TA within a triple-helix target.

Original publication

DOI

10.1021/bi050013v

Type

Journal article

Journal

Biochemistry

Publication Date

19/04/2005

Volume

44

Pages

5884 - 5892

Keywords

Base Sequence, DNA Footprinting, Deoxyribonuclease I, Deoxyribonucleotides, Hydrogen-Ion Concentration, Nucleic Acid Conformation, Nucleic Acid Denaturation, Oligodeoxyribonucleotides, Spectrometry, Fluorescence, Spectrophotometry, Ultraviolet, Thionucleotides