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Characterizing the structural and folding properties of long‐sequence hypomurocin B peptides and their analogs
Author(s) -
Horváth János,
Násztor Zoltán,
Bartha Ferenc,
Bogár Ferenc,
Leitgeb Balázs
Publication year - 2016
Publication title -
peptide science
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.556
H-Index - 125
eISSN - 1097-0282
pISSN - 0006-3525
DOI - 10.1002/bip.22870
Subject(s) - chemistry , intramolecular force , folding (dsp implementation) , sequence (biology) , stereochemistry , helix (gastropod) , peptide , protein folding , crystallography , molecular dynamics , amino acid , molecule , foldamer , computational chemistry , biochemistry , ecology , organic chemistry , snail , electrical engineering , biology , engineering
We studied the folding processes of long‐sequence hypomurocin (HM) peptides and their analogs by means of molecular dynamics methods, focusing on the formation of various helical structures and intramolecular H‐bonds. The evolution of different helical conformations, such as the 3 10 ‐, α‐, and left‐handed α‐helices, was examined, taking into account the entire sequence and each amino acid of peptides. The results indicated that the HM peptides and their analogs possessed a propensity to adopt helical conformations, and they showed a preference for the 3 10 ‐helical structure over the α‐helical one. The evolution of a variety of the intramolecular H‐bonds, including local and non‐local interactions, was also investigated. The results pointed out that on the one hand, the appearance of local, helix‐stabilizing H‐bonds correlated with the presence of helical conformations, and on the other hand, the non‐local H‐bonds did not affect significantly the formation of helical structures. Additionally, comparing the structural and folding features of HM peptides and their analogs, our study led to the observation that the L‐D isomerism of isovaline amino acid induced effects on the folding processes of these long‐sequence peptaibol molecules. Accordingly, the HM peptides and their analogs could be characterized by typical structural and folding properties. © 2016 Wiley Periodicals, Inc. Biopolymers (Pept Sci) 106: 645–657, 2016.