title: Chiral effects on helicity studied via the energy landscape of short (D, L)-alanine peptides.
abstract: The homochirality of natural amino acids facilitates the formation of regular secondary structures such as α-helices and β-sheets. Here, we study the relationship between chirality and backbone structure for the example of hexa-alanine. The most stable stereoisomers are identified through global optimisation. Further, the energy landscape, a database of connected low-energy local minima and transition points, is constructed for various neutral and zwitterionic stereoisomers of hexa-alanine. Three order parameters for partial helicity are applied and metric disconnectivity graphs are presented with partial helicity as a metric. We also apply the Zimm-Bragg model to derive average partial helicities for Ace-(L-Ala)6-NHMe, Ace-(D-Ala-L-Ala)3-NHMe, and Ace-(L-Ala)3-(D-Ala)3-NHMe from the database of local minima and compare with previous studies.
authors.affiliation: School of Chemistry, University of Birmingham, Edgbaston B15 2TT, United Kingdom.
authors.forename: Sridhar
authors.initials: S
authors.lastname: Neelamraju
authors.affiliation: School of Chemistry, University of Birmingham, Edgbaston B15 2TT, United Kingdom.
authors.forename: Mark T
authors.initials: MT
authors.lastname: Oakley
authors.affiliation: School of Chemistry, University of Birmingham, Edgbaston B15 2TT, United Kingdom.
authors.forename: Roy L
authors.initials: RL
authors.lastname: Johnston
mesh_terms: D000409:Alanine / Q000737:chemistry*; D006860:Hydrogen Bonding; D008958:Models, Molecular; D009842:Oligopeptides / Q000737:chemistry*; D017433:Protein Structure, Secondary; D013237:Stereoisomerism; D013816:Thermodynamics
chemical_list: D009842:Oligopeptides; D000409:Alanine