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Binding site size limit of the 2:1 pyrrole-imidazole polyamide-DNA motif

Kelly, James J. and Baird, Eldon E. and Dervan, Peter B. (1996) Binding site size limit of the 2:1 pyrrole-imidazole polyamide-DNA motif. Proceedings of the National Academy of Sciences of the United States of America, 93 (14). pp. 6981-6985. ISSN 0027-8424 http://resolver.caltech.edu/CaltechAUTHORS:KELpnas96

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Abstract

Polyamides containing N-methylimidazole (Im) and N-methylpyrrole (Py) amino acids can be combined in antiparallel side-by-side dimeric complexes for sequence-specific recognition in the minor groove of DNA. Six polyamides containing three to eight rings bind DNA sites 5-10 bp in length, respectively. Quantitative DNase I footprint titration experiments demonstrate that affinity maximizes and is similar at ring sizes of five, six, and seven. Sequence specificity decreases as the length of the polyamides increases beyond five rings. These results provide useful guidelines for the design of new polyamides that bind longer DNA sites with enhanced affinity and specificity.


Item Type:Article
Additional Information:Copyright © 1996 by the National Academy of Sciences. Contributed by Peter B. Dervan, March 26, 1996. We are grateful to the National Institutes of Health for grant support (GM-27681) and a National Research Service Award to J.J.K., and to the Howard Hughes Medical Institute for a predoctoral fellowship to E.E.B. The publication costs of this article were defrayed in part by page charge payment. This article must therefore be hereby marked "advertisement" in accordance with 18 U.S.C. §1734 solely to indicate this fact.
Subject Keywords:SEQUENCE-SPECIFIC RECOGNITION; MINOR-GROOVE; DISTAMYCIN; NMR; COMPLEXES; PEPTIDES; DESIGN
Record Number:CaltechAUTHORS:KELpnas96
Persistent URL:http://resolver.caltech.edu/CaltechAUTHORS:KELpnas96
Alternative URL:http://www.pnas.org/cgi/content/abstract/93/14/6981
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:1566
Collection:CaltechAUTHORS
Deposited By: Tony Diaz
Deposited On:30 Jan 2006
Last Modified:26 Dec 2012 08:45

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