Toward direct determination of conformations of protein building units from multidimensional NMR experiments. V. NMR chemical shielding analysis of N-formyl-serinamide, a model for polar side-chain containing peptides

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Abstract

Knowledge of chemical shift-structure relationships could greatly facilitate the NMR chemical shift assignment and structure refinement processes that occur during peptide/protein structure determination via NMR spectroscopy. To determine whether such correlations exist for polar side chain containing amino acid residues the serine dipeptide model, For-L-Ser-NH2, was studied. Using the GIAO-RHF/6-31 + G(d) and GIAO-RHF/TZ2P levels of theory the NMR chemical shifts of all hydrogen (1HN, 1Hα, 1Hβ1, 1Hβ2), carbon (13Cα, 13Cβ, 13C′) and nitrogen (15N) atoms have been computed for all 44 stable conformers of For-L-Ser-NH2. An attempt was made to establish correlation between chemical shift of each nucleus and the major conformational variables (ω0, φ, ψ, ω1, χ,1 and χ2). At both levels of theory a linear correlation can be observed between 1Hα/φ, 13Cα/φ, and 13Cα/ψ. These results indicate that the backbone and side-chain structures of For-L-Ser-NH2 have a strong influence on its chemical shifts.

Original languageEnglish
Pages (from-to)1157-1171
Number of pages15
JournalJournal of Computational Chemistry
Volume24
Issue number10
DOIs
Publication statusPublished - Jun 9 2003

Keywords

  • Ab initio calculation
  • Conformation
  • NMR chemical shift
  • Serine

ASJC Scopus subject areas

  • Chemistry(all)
  • Computational Mathematics

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