Large differences in the helix propensities of alanine and glycine

A Chakrabartty, JA Schellman, RL Baldwin - Nature, 1991 - nature.com
A Chakrabartty, JA Schellman, RL Baldwin
Nature, 1991nature.com
THE standard view of a helix formation in water, based on helix propensities determined by
the host–guest method1, 2, is that differences in helix propensity among the amino acids are
small, except for proline3, and that the average value of the helix propaga-tion parameter s
is near 1. A contradictory view of α helix formation in water is emerging from substitution
experiments with short, unique-sequence peptides that contain only naturally occurring
amino acids4–9. Short peptides that contain only alanine and lysine, or alanine and …
Abstract
THE standard view of a helix formation in water, based on helix propensities determined by the host–guest method1,2, is that differences in helix propensity among the amino acids are small, except for proline3, and that the average value of the helix propaga-tion parameter s is near 1. A contradictory view of α helix formation in water is emerging from substitution experiments with short, unique-sequence peptides that contain only naturally occurring amino acids4–9. Short peptides that contain only alanine and lysine, or alanine and glutamate, form surprisingly stable monomeric helices in water9 and substitution of a single alanine residue by another amino acid in these or related peptides produces a wide range of changes in helix content, depending on which amino acid is substituted for alanine4–6,8. We show here that the ratio of the helix propensities of alanine to glycine is large, about 100, in substitution experiments with a 17-residue reference peptide containing alanine and lysine. The helix propensity is identified with s, the helix propagation parameter of the statistical mechanics model for α helix formation, and the results are interpreted by the Lifson–Roig theory10. Single alanine → glycine substitutions have been made at a series of positions in individual peptides. The helix-destabilizing effect of an Ala → Gly substitution depends strongly on its position in the helix, as predicted by the Lifson–Roig theory if the ratio of s values for Ala: Gly is large.
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