PMID: 9547278Jun 20, 1998Paper

Triple helices formed at oligopyrimidine*oligopurine sequences with base pair inversions: effect of a triplex-specific ligand on stability and selectivity

Nucleic Acids Research
S KukretiC Hélène

Abstract

Oligonucleotide-directed triple helix formation is mostly restricted to oligopyrimidine*oligopurine sequences of double helical DNA. An interruption of one or two pyrimidines in the oligopurine target strand leads to a strong triplex destabilisation. We have investigated the effect of nucleotide analogues introduced in the third strand at the site opposite the base pair inversion(s). We show that a 3-nitropyrrole derivative (M) discriminates G*C from C*G, A*T and T*A in the presence of a triplex-specific ligand (a benzo[e]pyridoindole derivative, BePI). N6-methoxy-2,6-diaminopurine (K) binds to an A*T base pair better than a T*A, G*C or C*G base pair. Some discrimination is still observed in the presence of BePI and triplex stability is markedly increased. These findings should help in designing BePI-oligonucleotide conjugates to extend the range of DNA sequences available for triplex formation.

References

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Citations

Jun 19, 2001·Nucleic Acids Research·D Loakes
Feb 22, 2001·Methods : a Companion to Methods in Enzymology·B P ZhangD E Bergstrom
May 7, 2020·Journal of Biomolecular Structure & Dynamics·Shikha Kaushik, Shrikant Kukreti
Mar 27, 2004·Nucleosides, Nucleotides & Nucleic Acids·Ulf B ChristensenErik B Pedersen

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