Parmeter Optimization for Calculation of Proton Chemical Shift in Protein

  • Park, Kyunglae (College of Pharmacy, Chungnam National University) ;
  • Wil (Physical Chemistry, ETH Zentrum, CH-8092 Z rich, Switzerland)
  • Published : 1997.12.01


The magnetic anisotropy effects of peptide group in structured protein on proton chemical shift have been investigated using trialanine modeling. The structure dependent part of chemical shift of C${\alpha}$H of the second amino acid residue was assumed to come purely from the magnetic anisotropy effects of C=O and C-N bonds of peptide in the direct neighborhood and thus to be dependent on and $\psi$ angle of this dipeptide. A set of dipeptide models with different and $\psi$angles were generated and from these models the chemical shift values were calculated using known algorithm to emphasize the role of parameters used in the equation. Comparison of sets of different parameters resulted in an optimized parameters which could reproduce the statistical chemical shift values observed in proteins with respect ot the secondary conformation.