title: G-quadruplex DNA cleavage preference and identification of a perylene diimide G-quadruplex photocleavage agent using a rapid fluorescent assay.
abstract: A rapid fluorescence assay for G-quadruplex DNA cleavage was used to investigate the preference of TMPyP4 photochemical and Mn·TMPyP4 oxidative cleavage. Both agents most efficiently cleave the c-Myc promoter G-quadruplex. Direct PAGE analysis of selected assay samples showed that for a given cleavage agent, different cleavage products are formed from different G-quadruplex structures. Cleavage assays carried out in the presence of excess competitor nucleic acid structures revealed the binding selectivity of cleavage agents, while comparisons with duplex cleavage efficiency employing a dual-labeled hairpin oligonucleotide revealed neither agent prefers G-quadruplex over duplex substrates. Finally, this assay was used to identify the perylene diimide Tel11 as a photocleavage agent for the c-Myc G-quadruplex.
authors.affiliation: Department of Chemistry and Biochemistry, University of Texas at Austin, Austin, TX 78712, USA.
authors.forename: Michelle
authors.initials: M
authors.lastname: Schoonover
authors.forename: Sean M
authors.initials: SM
authors.lastname: Kerwin
mesh_terms: D001483:Base Sequence; D053837:DNA Cleavage; D031541:Fluorescence Resonance Energy Transfer; D054856:G-Quadruplexes; D016259:Genes, myc; D006801:Humans; D007094:Imides / Q000737:chemistry*; D015394:Molecular Structure; D009690:Nucleic Acid Conformation; D010569:Perylene / Q000031:analogs & derivatives* / Q000737:chemistry; D055668:Photochemical Processes; D011401:Promoter Regions, Genetic; D013050:Spectrometry, Fluorescence
chemical_list: D007094:Imides; C521332:perylenediimide; D010569:Perylene