Journal of Polymer Science Part B: Polymer Physics, Vol.34, No.7, 1327-1338, 1996
Chain Conformation in Polyretropeptides .2. Quantum-Mechanical and Empirical Force-Field Calculations on 2,5,9,11-Tetraoxo-3,6,8,12-Tetraza-Tridecane, a Model-Compound for the Terpolymer of Glycine and Its Retropeptides
A conformational study of the terpolymer of glycine and its retropeptides monomethylendiamine (gGly) and malonyl (mGly) with sequence : (-Gly-gGly-mGly-), is presented. First, we investigated the conformational preferences of the model molecule 2,5,9,11-tetraoxo-3,6,8,12-tetraza-tridecane using quantum mechanical calculations. The results indicated that the compound has a strong tendency to fold, giving intramolecular hydrogen bonds. Interestingly, the C-13 (intramolecular 13-membered ring hydrogen-bonded system) con formation, which is the pattern of an alpha-helix conformation, was characterized as a minimum. Force-field calculations in an infinite chain model showed that there are two preferred conformations to this regular polyretropeptide. These correspond to an alpha-helix and a 6-fold helix stabilized by intramolecular and intermolecular hydrogen bonds, respectively.
Keywords:ALPHA-AMINOISOBUTYRIC-ACID;RETRO-INVERSO PEPTIDES;COMPUTER-SIMULATION;SCF-MO;DIPEPTIDE;AMIDE;N;N’-DIMETHYLMALONAMIDE;GEOMETRIES;ABINITIO;ANALOGS