Skip Navigation

This Article
Right arrow Full Text Freely available
Right arrow Print PDF (332K) 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 (32)
Right arrowRequest Permissions
Right arrow Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by Cairns, M. J.
Right arrow Articles by Sun, L.-Q.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Cairns, M. J.
Right arrow Articles by Sun, L.-Q.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Nucleic Acids Research, 2003, Vol. 31, No. 11 2883-2889
© 2003 Oxford University Press

Optimisation of the 10–23 DNAzyme–substrate pairing interactions enhanced RNA cleavage activity at purine–cytosine target sites

Murray J. Cairns, Andrew King and Lun-Quan Sun

Johnson and Johnson Research Laboratories, Australian Technology Park, Level 4, One Central Avenue, Eveleigh, NSW 1430, Australia

*To whom correspondence should be addressed. Tel: +61 2 8396 5800; Fax: +61 2 8396 5811; Email: lsun2{at}medau.jnj.com

The 10–23 RNA cleaving DNAzyme has been shown to cleave any purine–pyrimidine (RY) junction under simulated physiological conditions. In this study, we systematically examine the DNAzymes relative activity against different RY combinations in order to determine the hierarchy of substrate core dinucleotide sequence susceptibility. The reactivity of each substrate dinucleotide compared in the same background sequence with the appropriately matched DNAzyme was found to follow the scheme AU = GU >=>= GC >> AC. The relatively poor activity of the DNAzyme against AC and GC containing substrates was found to be improved substantially by modifications to the binding domain which subtly weaken its interaction with the substrate core. The most effective modification resulting in rate enhancement of up to 200-fold, was achieved by substitution of deoxyguanine with deoxyinosine such that the base pair interaction with the RNA substrates core C is reduced from three hydrogen bonds to two. The increased cleavage activity generated by this modification could be important for application of the 10–23 DNAzyme particularly when the target site core is an AC dinucleotide.


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
K. Schlosser, J. Gu, J. C. F. Lam, and Y. Li
In vitro selection of small RNA-cleaving deoxyribozymes that cleave pyrimidine-pyrimidine junctions
Nucleic Acids Res., August 1, 2008; 36(14): 4768 - 4777.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
K. Schlosser, J. Gu, L. Sule, and Y. Li
Sequence-function relationships provide new insight into the cleavage site selectivity of the 8-17 RNA-cleaving deoxyribozyme
Nucleic Acids Res., March 1, 2008; 36(5): 1472 - 1481.
[Abstract] [Full Text] [PDF]

Home page
 RNAHome page
M. Hengesbach, M. Meusburger, F. Lyko, and M. Helm
Use of DNAzymes for site-specific analysis of ribonucleotide modifications
RNA, January 1, 2008; 14(1): 180 - 187.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
S. K. Silverman
In vitro selection, characterization, and application of deoxyribozymes that cleave RNA
Nucleic Acids Res., November 11, 2005; 33(19): 6151 - 6163.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
M. K. Uddin, Y. Kato, Y. Takagi, T. Mikuma, and K. Taira
Phosphorylation at 5' end of guanosine stretches inhibits dimerization of G-quadruplexes and formation of a G-quadruplex interferes with the enzymatic activities of DNA enzymes
Nucleic Acids Res., August 27, 2004; 32(15): 4618 - 4629.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
M. Bonaccio, A. Credali, and A. Peracchi
Kinetic and thermodynamic characterization of the RNA-cleaving 8-17 deoxyribozyme
Nucleic Acids Res., February 12, 2004; 32(3): 916 - 925.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
S. Schubert, D. C. Gul, H.-P. Grunert, H. Zeichhardt, V. A. Erdmann, and J. Kurreck
RNA cleaving '10-23' DNAzymes with enhanced stability and activity
Nucleic Acids Res., October 15, 2003; 31(20): 5982 - 5992.
[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.