Skip Navigation



Nucleic Acids Research Advance Access published online on January 12, 2009
Nucleic Acids Research, doi:10.1093/nar/gkn1060
This Article
Right arrow Full Text Freely available
Right arrow Print PDF (5711K) Freely available
Right arrow Screen PDF (439K) Freely available
Right arrow Supplementary Data
Right arrowOA All Versions of this Article:
37/4/1288    most recent
gkn1060v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by Rusling, D. A.
Right arrow Articles by Brown, T.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Rusling, D. A.
Right arrow Articles by Brown, T.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© 2009 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Chemistry and Synthetic Biology

DNA triplex formation with 5-dimethylaminopropargyl deoxyuridine

David A. Rusling1, Guomei Peng1,2, Natarajan Srinivasan2, Keith R. Fox1,* and Tom Brown2

1School of Biological Sciences, University of Southampton, Bassett Crescent East, Southampton SO16 7PX and 2School of Chemistry, University of Southampton, Highfield, Southampton SO17 1BJ, UK

*To whom correspondence should be addressed. Tel: +44 23 8059 4374; Fax: +44 23 8059 4459; Email: k.r.fox{at}soton.ac.uk

Received November 20, 2008. Revised December 16, 2008. Accepted December 17, 2008.

We have prepared triplex-forming oligonucleotides containing the nucleotide analogue 5-dimethylaminopropargyl deoxyuridine (DMAPdU) in place of thymidine and examined their ability to form intermolecular triple helices by thermal melting and DNase I footprinting studies. The results were compared with those for oligonucleotides containing 5-aminopropargyl-dU (APdU), 5-guanidinopropargyl-dU (GPdU) and 5-propynyl dU (PdU). We find that DMAPdU enhances triplex stability relative to T, though slightly less than the other analogues that bear positive charges (T << PdU < DMAPdU < APdU < GPdU). For oligonucleotides that contain multiple substitutions with DMAPdU dispersed residues are more effective than clustered combinations. DMAPdU will be especially useful as a nucleotide analogue as, unlike APdU and GPdU, the base does not require protection during oligonucleotide synthesis and it can therefore be used with other derivatives that require mild deprotection conditions.

Present address: David A. Rusling, Department of Biochemistry, University of Bristol, University Walk, Bristol BS8 1TD, UK


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?




Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.