Alpha-helix nucleation by a calcium-binding peptide loop

Proc Natl Acad Sci U S A. 1999 Feb 2;96(3):903-8. doi: 10.1073/pnas.96.3.903.

Abstract

A 12-residue peptide AcDKDGDGYISAAENH2 analogous to the third calcium-binding loop of calmodulin strongly coordinates lanthanide ions (K = 10(5) M-1). When metal saturated, the peptide adopts a very rigid structure, the same as in the native protein, with three last residues AAE fixed in the alpha-helical conformation. Therefore, the peptide provides an ideal helix nucleation site for peptide segments attached to its C terminus. NMR and CD investigations of peptide AcDKDGDGYISAAEAAAQNH2 presented in this paper show that residues A13-Q16 form an alpha-helix of very high stability when the La3+ ion is bound to the D1-E12 loop. In fact, the lowest estimates of the helix content in this segment give values of at least 80% at 1 degreesC and 70% at 25 degreesC. This finding is not compatible with existing helix-coil transition theories and helix propagation parameters, s, reported in the literature. We conclude, therefore, that the initial steps of helix propagation are characterized by much larger s values, whereas helix nucleation is even more unfavorable than is believed. In light of our findings, thermodynamics of the nascent alpha-helices is discussed. The problem of CD spectra of very short alpha-helices is also addressed.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Sequence
  • Animals
  • Binding Sites
  • Calcium / metabolism
  • Calmodulin / chemistry*
  • Calmodulin / metabolism
  • Circular Dichroism
  • Kinetics
  • Male
  • Metals, Rare Earth / metabolism
  • Models, Molecular
  • Molecular Sequence Data
  • Nuclear Magnetic Resonance, Biomolecular
  • Oligopeptides / chemistry
  • Peptides / chemistry*
  • Protein Structure, Secondary*
  • Rats
  • Testis / metabolism

Substances

  • Calmodulin
  • Metals, Rare Earth
  • Oligopeptides
  • Peptides
  • Calcium

Associated data

  • PDB/1NKF