Computational Exploration of Conformations of Glycine-Arginine and a Deduced Model on Global Minimum Configurations of Dipeptides in Gas Phase |
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| Authors: | Kai-yi Yang Bing Yang Zi-jing Lin |
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| Affiliation: | Hefei National Laboratory for Physical Sciences at the Microscale and Collaborative Innovation Center of Suzhou Nano Science and Technology, Department of Physics, University of Science and Technology of China, Hefei 230026, China |
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| Abstract: | An extensive computational study on the conformations of gaseous dipeptide glycinearginine, GlyArg, has been performed. A large number of trail structures were generated by systematically sampling the potential energy surface (PES) of GlyArg. The trial structures were successively optimized with the methods of PM3, HF/3-21G*, BHandHLYP/6-31G*, and BHandHLYP/6-311++G** in order to reliably find the low energy conformations. The conformational energies were finally determined with the methods of BHandHLYP, camB3LYP, B97D, and MP2 using the basis set of 6-311++G(3df,3pd). The results establish firmly that gaseous GlyArg exists primarily in its canonical form, in sharp contrast with ArgGly that adopts the zwitterionic form. Important data such as the rotational constants, dipole moments, vertical ionization energies, temperature distributions and IR spectra of the low energy conformers are represented for the understanding of the future experiments. Moreover, considering the global minima of all amino acids and many dipeptides, combined with the hydrophobicities of amino acids, a model predicting whether the global minimum configuration of a dipeptide is canonical or zwitterionic is developed. |
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| Keywords: | Potential energy surface Amino acid Oligopeptide Conformation data IR spectrum Structural model |
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