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The Strathprints institutional repository is a digital archive of University of Strathclyde's Open Access research outputs. Strathprints provides access to thousands of Open Access research papers by University of Strathclyde researchers, including by researchers from the Department of Computer & Information Sciences involved in mathematically structured programming, similarity and metric search, computer security, software systems, combinatronics and digital health.

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DNA sequence recognition by an isopropyl substituted thiazole polyamide

James, P.L. and Merkina, E.E. and Khalaf, A.I. and Suckling, C.J. and Waigh, R.D. and Brown, T. and Fox, K.R. (2004) DNA sequence recognition by an isopropyl substituted thiazole polyamide. Nucleic Acids Research, 32 (11). pp. 3410-3417. ISSN 0305-1048

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Abstract

We have used DNA footprinting and fluorescence melting experiments to study the sequence-specific binding of a novel minor groove binding ligand (thiazotropsin A), containing an isopropyl substituted thiazole polyamide, to DNA. In one fragment, which contains every tetranucleotide sequence, sub-micromolar concentrations of the ligand generate a single footprint at the sequence ACTAGT. This sequence preference is confirmed in melting experiments with fluorescently labelled oligonucleotides. Experiments with DNA fragments that contain variants of this sequence suggest that the ligand also binds, with slightly lower affinity, to sequences of the type XCYRGZ, where X is any base except C, and Z is any base except G.