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2+ (refs 8 and 9), the undesired formation of such adducts might also be responsible for the observed destabilization.
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One equiv of metal ions represents the amount that is necessary for the formation of a regular double helix in which each potential metal-ion-mediated base pair contains one metal ion
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One equiv of metal ions represents the amount that is necessary for the formation of a regular double helix in which each potential metal-ion-mediated base pair contains one metal ion.
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54
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37249075681
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The labeled oligonucleotides A, B, and C cannot be used to confirm the conformational change. In these, the fluorescein and dabcyl moieties stabilize the hairpin conformation to such an extent, that no regular double helix is formed upon the addition of silver(I). This can be seen for example from the concentration-independent melting temperature of C (Supporting Information, Figure S2).
-
The labeled oligonucleotides A, B, and C cannot be used to confirm the conformational change. In these, the fluorescein and dabcyl moieties stabilize the hairpin conformation to such an extent, that no regular double helix is formed upon the addition of silver(I). This can be seen for example from the concentration-independent melting temperature of C (Supporting Information, Figure S2).
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The hydrodynamic radius does not double when the length of the oligonucleotide doubles because it merely represents the radius of a hypothetic hard spherical particle that diffuses with the same speed as the particle under examination. Whereas short hairpins can accurately be described as spherical particles, double helices should rather be considered as short, rodlike molecules.[27] Hence, the hydrodynamic radii of the latter are always smaller than half of the length of their long axes
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[27] Hence, the hydrodynamic radii of the latter are always smaller than half of the length of their long axes.
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