NMR studies on self-complementary oligonucleotides conjugated with methylene blue.

Judith Jähnchen; Maria G M Purwanto; Klaus Weisz

doi:10.1002/bip.20363

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NMR studies on self-complementary oligonucleotides conjugated with methylene blue.

Judith Jähnchen·Maria G M Purwanto·Klaus Weisz

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Abstract

A carboxyl-functionalized methylene blue (MB) derivative was synthesized and covalently coupled to three CG-rich self-complementary 2'-deoxyoligonucleotides at their 5'-end. Thermodynamic and structural details about the interactions between the dye and oligonucleotide duplexes were investigated employing ultraviolet (UV) melting and (1)H nuclear magnetic resonance (NMR) experiments. In contrast to previous findings on MB binding, no specific intercalation or binding in the minor or major groove of the double helix was found in a 100 mM NaCl buffer. Rather, proton chemical shift changes in the conjugates provide ample evidence for weak dye-DNA interactions largely through external MB stacking on the terminal base pairs.

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Base Composition Base Sequence Cytosine Guanine Methylene Blue Models, Molecular Molecular Structure Nuclear Magnetic Resonance, Biomolecular Nucleic Acid Conformation Oligonucleotides Spectrophotometry, Ultraviolet Temperature Thermodynamics Journal Article

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Judith Jähnchen, Maria G M Purwanto, Klaus Weisz. 2005-12-15. NMR studies on self-complementary oligonucleotides conjugated with methylene blue.. https://doi.org/10.1002/bip.20363

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