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Recognition of double helical DNA by alternate strand triple helix formation

Beal, Peter A. and Dervan, Peter B. (1992) Recognition of double helical DNA by alternate strand triple helix formation. Journal of the American Chemical Society, 114 (13). pp. 4976-4982. ISSN 0002-7863. doi:10.1021/ja00039a004.

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The triplet specificities and required strand orientations of two classes of DNA triple helices can be combined to target double helical sequences containing all four base pairs by alternate strand triple helix formation. This allows for the use of oligonucleotides containing only natural 3'-5' phosphodiester linkages to simultaneously bind both strands of double helical DNA in the major groove. The stabilities and structures of these alternate strand triple helices depend on whether the binding site sequence is 5'-(purine)_m(pyrimidine)_n-3' or 5'-(pyrimidine)_m(purine)_n-3'. The sequence type 5'-(purine)_m-(pyrimidine)_n-3' was targeted with an oligonucleotide consisting of a pyrimidine domain and a purine domain linked by a 3'-5' phosphodiester. To bind the duplex sequence type 5'-(pyrimidine)_m(purine)_n-3', the third strand requires at least two nucleotides linking binding domains at the site of crossover in the major groove. A new class of oligonucleotides capable of binding mixed duplex sequences by crossovers in the major groove may be possible.

Item Type:Article
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Dervan, Peter B.0000-0001-8852-7306
Additional Information:© 1992 American Chemical Society. Received January 27, 1992. We are grateful for generous support from the National Institutes of Health (HG 00329) and a DOE predoctoral fellowship for P.A.B.
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Department of Energy (DOE)UNSPECIFIED
Issue or Number:13
Record Number:CaltechAUTHORS:20160510-141948690
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Official Citation:Recognition of double helical DNA by alternate strand triple helix formation Peter A. Beal and Peter B. Dervan Journal of the American Chemical Society 1992 114 (13), 4976-4982 DOI: 10.1021/ja00039a004
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:66939
Deposited By: Victoria Brennan
Deposited On:19 May 2016 17:20
Last Modified:11 Nov 2021 00:24

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