Monte Carlo calculation on trans/cis-polysarcosine.
Monte Carolo calculations were made on unperturbed trans-polysarcosine chain, non-self-intersecting trans-polysarcosine chain, and also non-self-intersecting trans/cis-polysarcosine chain by using a hard-sphere model. In the last case, an attempt was first made to introduce cis amide bond into the Monte Carlo calculation of polypeptide chain. Dipeptide energy maps for four different trans/cis dyad sequences were calculated. The allowed regions were consistent with the pairs of dihedral angles observed in cyclo-pentasarcosyl and cyclo-octasarcosyl. The mean-square end-to-end distance and higher even moments were obtained. The distribution function of the end-to-end distance was calculated from the even moments by using Nagai's equation and compared with the direct Monte Carlo data. The best agreement was obtained by cutting off the terms containing much higher order even moments than a critical order. The fractions of cis amide bond and of the four different trans/cis dyad sequences in polysarcosine were calculated. The results of calculation were compared with the 220-MHz NMR spectra of polysarcosine in three different solvents. Qualitative agreement was stained for longer chains.
D000577:Amides; D001665:Binding Sites; D004151:Dipeptides; D009682:Magnetic Resonance Spectroscopy; D008433:Mathematics; D008722:Methods; D010455:Peptides; D011485:Protein Binding; D011487:Protein Conformation; D012521:Sarcosine
D000577:Amides; D004151:Dipeptides; D010455:Peptides; D012521:Sarcosine