Le calcul du déplacement chimique, un outil de validation des structures d’acides nucléiques

Abstract

The large majority of analytical NMR methods in chemistry or biochemistry are based on the quality of the chemical shift dispersion. The purpose of this work is to show that theoretical chemical shift back calculation starting from structures can be used to select molecular modeling structures in order to differentiate several conformational possibilities. Here we report the result of the chemical shift calculation carried out on two original structures corresponding to two DNA ‘kissing complexes’. The 46 nucleotides sequence corresponds to the RNA deoxyribose analogous implied in the HIV-1_Lai dimerization process. It is interesting to note that, even in cases we are very far from the classical helical structure (loop–loop interaction, AA base pairing, base stacking, misappariement...), the theoretical chemical shift is in very good agreement with the experimental chemical shift (±0.25 ppm). The satisfactory results obtained enable us to conclude that the comparison of the proton chemical shifts is an invaluable tool making it possible to select or to validate oligonucleotides structures.