The energy landscape of unsolvated peptides: the role of context in the stability of alanine/glycine helices

J Am Chem Soc. 2003 Apr 2;125(13):3941-7. doi: 10.1021/ja020610u.

Abstract

Ion mobility measurements have been used to examine the conformations present for unsolvated Ac-(AG)(7)A+H(+) and (AG)(7)A+H(+) peptides (Ac = acetyl, A = alanine, and G = glycine) over a broad temperature range (100-410 K). The results are compared to those recently reported for Ac-A(4)G(7)A(4)+H(+) and A(4)G(7)A(4)+H(+), which have the same compositions but different sequences. Ac-(AG)(7)A+H(+) shows less conformational diversity than Ac-A(4)G(7)A(4)+H(+); it is much less helical than Ac-A(4)G(7)A(4)+H(+) at the upper end of the temperature range studied, and at low temperatures, one of the two Ac-A(4)G(7)A(4)+H(+) features assigned to helical conformations is missing for Ac-(AG)(7)A+H(+). Molecular dynamics simulations suggest that the different conformational preferences are not due to differences in the stabilities of the helical states, but differences in the nonhelical states: it appears that Ac-(AG)(7)A+H(+) is more flexible and able to adopt lower energy globular conformations (compact random looking three-dimensional structures) than Ac-A(4)G(7)A(4)+H(+). The helix to globule transition that occurs for Ac-(AG)(7)A+H(+) at around 250-350 K is not a direct (two-state) process, but a creeping transition that takes place through at least one and probably several intermediates.

Publication types

  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Alanine / chemistry*
  • Glycine / chemistry*
  • Models, Molecular
  • Peptides / chemistry*
  • Protein Conformation
  • Protein Structure, Secondary
  • Thermodynamics

Substances

  • Peptides
  • Alanine
  • Glycine