Kondo, H.X.; Nakamura, H.; Takano, Y. Depolarizing Effects in Hydrogen Bond Energy in 310-Helices Revealed by Quantum Chemical Analysis. Int. J. Mol. Sci.2022, 23, 9032.
Kondo, H.X.; Nakamura, H.; Takano, Y. Depolarizing Effects in Hydrogen Bond Energy in 310-Helices Revealed by Quantum Chemical Analysis. Int. J. Mol. Sci. 2022, 23, 9032.
Kondo, H.X.; Nakamura, H.; Takano, Y. Depolarizing Effects in Hydrogen Bond Energy in 310-Helices Revealed by Quantum Chemical Analysis. Int. J. Mol. Sci.2022, 23, 9032.
Kondo, H.X.; Nakamura, H.; Takano, Y. Depolarizing Effects in Hydrogen Bond Energy in 310-Helices Revealed by Quantum Chemical Analysis. Int. J. Mol. Sci. 2022, 23, 9032.
Abstract
Hydrogen-bond (H-bond) energies in 310-helices of short alanine peptides were systematically examined by precise DFT calculations with the negative fragmentation approach (NFA), a modified method based on the molecular tailoring approach. The contribution of each H-bond was evaluated in detail from the 310-helical conformation of total energies (whole helical model; WH3-10 model), and the results were compared with the property of H-bond in a-helix from our previous study. The H-bond energies of the WH3-10 model exhibited tendencies different from those exhibited by the -helix, in that they depended on the helical position of the relevant H-bond pair. H-bond pairs adjacent to the terminal H-bond pairs were observed to be strongly destabilized. The analysis of electronic structures indicated that structural characteristics cause the destabilization of the H-bond in 310-helices. We also found that the longer the helix length, the more stable the H-bond in the terminal pairs of the WH3-10 model, suggesting the action of H-bond cooperativity.
Keywords
310-helix; hydrogen bond energy; density functional theory; negative fragmentation analysis
Subject
Biology and Life Sciences, Biochemistry and Molecular Biology
Copyright:
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