Predicting 15N amide chemical shifts in proteins.: I.: An additive model for the backbone contribution

Because proteins adopt unique structures, chemically identical nuclei in proteins exhibit different chemical shifts. Amide N-15 chemical shifts have been shown to vary over 20 ppm. The cause of these chemical shift inequivalencies is the different intra- and intermolecular interactions that individual nuclei experience at different locations in the protein structure. These chemical shift inequivalencies can be described as structural shifts, the difference between the actual chemical shift and the random coil chemical shift. As a first step toward the prediction of these amide N-15 structural shifts, calculations have been carried out on acetyl-glycine-methyl amide to examine how a neighboring peptide group influences the amide N-15 structural shifts. The phi, psi dihedral angle space is completely surveyed, while all other geometrical variables are held fixed, to isolate the Effect of the backbone conformation. Similar calculations for a limited number of conformations of acetyl-glycine-glycine-methyl amide were carried out, where the effects of the two terminal peptide groups on the central amide N-15 structural shift are examined. It is shown that the effect of the two adjacent groups can be accurately modeled by combining their individual effects additively. This provides a quite simple method to predict the backbone influence on amide N-15 structural shifts in proteins. (C) 2001 John Wiley & Sons, Inc.