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• W2082091812 abstract "The left-handed DNA structure, Z-DNA, is believed to play important roles in gene expression and regulation. Z-DNA forms sequence-specifically with a preference for sequences rich in pyrimidine/purine dinucleotide steps. In vivo, Z-DNA is generated in the presence of negative supercoiling or upon binding proteins that absorb the high energetic cost of the B-to-Z transition, including the creation of distorted junctions between B-DNA and Z-DNA. To date, the sequence preferences for the B-to-Z transition have primarily been studied in the context of sequence repeats lacking B-Z junctions. Here, we develop a method for characterizing sequence-specific preferences for Z-DNA formation and B-Z junction localization within heterogeneous DNA duplexes that is based on combining 2-aminopurine fluorescence measurements with a new quantitative application of circular dichroism spectroscopy for determining the fraction of B- versus Z-DNA. Using this approach, we show that at least three consecutive CC dinucleotide steps, traditionally thought to disfavor Z-DNA, can be incorporated within heterogeneous Z-DNA containing B-Z junctions upon binding to the Zα domain of the RNA adenosine deaminase protein. Our results indicate that the incorporation of CC steps into Z-DNA is driven by favorable sequence-specific Z-Z and B-Z stacking interactions as well as by sequence-specific energetics that localize the distorted B-Z junction at flexible sites. Together, our results expose higher-order complexities in the Z-DNA code within heterogeneous sequences and suggest that Z-DNA can in principle propagate into a wider range of genomic sequence elements than previously thought." @default.
• W2082091812 created "2016-06-24" @default.
• W2082091812 creator A5013506365 @default.
• W2082091812 creator A5034049456 @default.
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• W2082091812 date "2012-08-17" @default.
• W2082091812 modified "2023-09-27" @default.
• W2082091812 title "Incorporation of CC Steps into Z-DNA: Interplay between B–Z Junction and Z-DNA Helical Formation" @default.
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• W2082091812 doi "https://doi.org/10.1021/bi300785b" @default.
• W2082091812 hasPubMedCentralId "https://www.ncbi.nlm.nih.gov/pmc/articles/3676945" @default.
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• W2082091812 hasPublicationYear "2012" @default.
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