Novel application of ion mobility and high resolution mass spectrometry to characterise ligand binding to a DNA aptamer

摘要

The combination of techniques provided complementary structural information. During fragmentation 7 fragments were observed with kanamycin still bound. Fragmentation mainly occurs in the hairpin region of the aptamer with 5 of the fragments on the 3' side of the molecule. This suggests that the interaction is stronger with the 3' side of the aptamer. The ion mobility data was carried out using both DT and TW Ion Mobility both of which gave complementary cross-sections. There is very little increase in cross-section upon binding of kanamycin implying there is not a large structural change and therefore the double stranded binding region is not interfered with.