RNA as scaffold for pyrene excited complexes

1-Ethynylpyrene attached to the 2-position of adenosine is directed into the easily accessible minor groove in RNA. Single and double strands can be distinguished in twofold labeled RNA by their fluorescence maxima at 450 and 480 nm, respectively. Synthesis and spectral properties of 1-ethynylpyrene base modified RNA are reported. The fluorophore attached to the 2-position of adenosine is directed into the easily accessible minor groove in RNA. Through an intermolecular interaction of the pyrene residues in twofold labelled RNA, single and double strands can be distinguished by their fluorescence maxima around 450 and 480 nm, respectively. This behaviour allows the kinetic investigation of RNA hybridisation and folding by fluorescence spectroscopy.