A Small Change in Structure, a Big Change in Flexibility

• Published in: Molecules (Basel, Switzerland) Switzerland), 2023-12, Vol.28 (24), p.8004
• Main Authors: Vassilev, Nikolay G, Ivanov, Ivo C
• Format: Article
• Language: English
• Subjects: amide bond; Bonds; Chemical properties; Density functionals; DFT calculations; dynamic NMR; enamine bond; Flexibility; Nitrogen; NMR; Nuclear magnetic resonance; Peptides; reference deconvolution; rotational barrier energy; Spectrum analysis; Temperature
• ISSN: 1420-3049; 1420-3049
• DOI: 10.3390/molecules28248004

Studies of the rotational barrier energy of the amide bond using quantum computing and nuclear magnetic resonance (NMR) are focused mainly on its use as a model of the peptide bond. The results of these studies are valuable not only in terms of the fundamental conformational properties of amide bonds, but also in the design of molecular machines, which have recently attracted interest. We investigate the fluxionality of the amide and enamide bonds of compound 3-[( )-(dimethylamino)methylidene]-1,1-dimethylurea using advanced dynamic NMR experiments and a theoretical evaluation of the density functional theory (DFT) calculation. The dynamic NMR study shows restricted rotation around the amide group (16.4 kcal/mol) and a very high barrier around the enamine group (18.6 kcal/mol). In a structurally similar compound, ( )-3-(dimethylamino)- , -dimethylacrylamide (N atom is replaced by CH), the amide barrier is 12.4 kcal/mol and the enamine barrier is 11.7 kcal/mol. The DFT studies of both compounds reveal the electronic origin of this phenomenon. Theoretical calculations reveal the origin of the higher enamine barrier. The better delocalization of the lone pair of electrons on the end nitrogen atom into the antibonding orbital of the neighboring C-N double bond leads to the better stabilization of the ground state, and this leads to a greater increase in the enamine barrier.