Skip Navigation

This Article
Right arrow Full Text Freely available
Right arrow Print PDF (294K) Freely available
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 ISI Web of Science
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 Search for citing articles in:
ISI Web of Science (15)
Right arrowRequest Permissions
Right arrow Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by Gannett, P. M.
Right arrow Articles by Budil, D. E.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Gannett, P. M.
Right arrow Articles by Budil, D. E.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Nucleic Acids Research, 2002, Vol. 30, No. 23 5328-5337
© 2002 Oxford University Press

Probing triplex formation by EPR spectroscopy using a newly synthesized spin label for oligonucleotides

Peter M. Gannett*, Eva Darian, Jeannine Powell, Edward M. Johnson Il, Claudius Mundoma1, Nancy L. Greenbaum1, Chris M. Ramsey1, Naresh S. Dalal1 and David E. Budil2

West Virginia University, Department of Basic Pharmaceutical Sciences, PO Box 9530, Morgantown, WV 26506, USA, 1 Florida State University, Department of Chemistry and Biochemistry, Tallahassee, FL 32306, USA and 2 Northeastern University, Department of Chemistry, Boston, MA 02115, USA

*To whom correspondence should be addressed. Tel: +1 304 293 1480; Fax: +1 304 293 2576; Email: pgannett{at}hsc.wvu.edu

Spin labels have been extensively used to study the dynamics of oligonucleotides. Spin labels that are more rigidly attached to a base in an oligonucleotide experience much larger changes in their range of motion than those that are loosely tethered. Thus, their electron paramagnetic resonance spectra show larger changes in response to differences in the mobility of the oligonucleotides to which they are attached. An example of this is 5-(2,2,5,5-tetramethyl-3-ethynylpyrrolidine-1-oxyl)-uridine (1). How ever, the synthesis of this modified DNA base is quite involved and, here, we report the synthesis of a new spin-labeled DNA base, 5-(2,2,6,6-tetramethyl-4-ethynylpiperidyl-3-ene-1-oxyl)-uridine (2). This spin label is readily prepared in half the number of steps required for 1, and yet behaves in a spectroscopically analogous manner to 1 in oligonucleotides. Finally, it is shown here that both spin labels 1 and 2 can be used to detect the formation of both double-stranded and triplex DNA.


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


This article has been cited by other articles:


Home page
 Nucleic Acids ResHome page
P. Cekan, A. L. Smith, N. Barhate, B. H. Robinson, and S. Th. Sigurdsson
Rigid spin-labeled nucleoside C: a nonperturbing EPR probe of nucleic acid conformation
Nucleic Acids Res., October 1, 2008; 36(18): 5946 - 5954.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
G. P. G. Grant and P. Z. Qin
A facile method for attaching nitroxide spin labels at the 5' terminus of nucleic acids
Nucleic Acids Res., May 21, 2007; (2007) gkm240v1.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
N. Piton, Y. Mu, G. Stock, T. F. Prisner, O. Schiemann, and J. W. Engels
Base-specific spin-labeling of RNA for structure determination
Nucleic Acids Res., May 14, 2007; 35(9): 3128 - 3143.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
S.-i. Nakano, T. Kirihata, S. Fujii, H. Sakai, M. Kuwahara, H. Sawai, and N. Sugimoto
Influence of cationic molecules on the hairpin to duplex equilibria of self-complementary DNA and RNA oligonucleotides
Nucleic Acids Res., January 28, 2007; 35(2): 486 - 494.
[Abstract] [Full Text] [PDF]


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.