Institute of Biophysics of the Czech Academy of Sciences, v.v.i., Královopolská 135, 612 65 Brno, Czech Republic.
CEITEC-Central European Institute of Technology, Masaryk University, Kamenice 735/5, 625 00 Brno, Czech Republic.
Nucleic Acids Res. 2019 Mar 18;47(5):2177-2189. doi: 10.1093/nar/gkz046.
The formation of intercalated motifs (iMs) - secondary DNA structures based on hemiprotonated C.C+ pairs in suitable cytosine-rich DNA sequences, is reflected by typical changes in CD and UV absorption spectra. By means of spectroscopic methods, electrophoresis, chemical modifications and other procedures, we characterized iM formation and stability in sequences with different cytosine block lengths interrupted by various numbers and types of nucleotides. Particular attention was paid to the formation of iMs at pH conditions close to neutral. We identified the optimal conditions and minimal requirements for iM formation in DNA sequences, and addressed gaps and inaccurate data interpretations in existing studies to specify principles of iM formation and modes of their folding.
插层基序 (iMs) 的形成 - 基于适当的富含胞嘧啶的 DNA 序列中半质子化的 C.C+ 对的二级 DNA 结构，反映在 CD 和 UV 吸收光谱的典型变化中。通过光谱方法、电泳、化学修饰和其他程序，我们对不同长度的胞嘧啶块的序列中的 iM 形成和稳定性进行了表征，这些序列被不同数量和类型的核苷酸打断。特别关注接近中性 pH 条件下 iMs 的形成。我们确定了 DNA 序列中 iMs 形成的最佳条件和最小要求，并解决了现有研究中存在的差距和不准确的数据解释，以指定 iMs 形成的原则和它们折叠的模式。
