1H and 13C NMR assignments and molecular modelling of a minor groove DNA-binding peptide from the HMG-I protein

Int J Pept Protein Res. 1995 Jun;45(6):554-60. doi: 10.1111/j.1399-3011.1995.tb01319.x.

Abstract

The HMG-I subfamily of high mobility group (HMG) chromatin proteins consists of DNA-binding proteins that preferentially bind to stretches of A.T-rich sequence both in vitro and in vivo. Recently, members of the HMG-I family have been suggested to bind in vitro to the narrow minor groove of A.T-DNA by means of an 11 amino acid peptide binding domain (BD) which, because of its predicted structure, is called the 'A.T-hook motif' [Reeves, R. & Nissen, M. (1990) J. Biol. Chem. 265, 8573-8582], and would appear to be crescent-shaped. A BD peptide with 13 amino-acid residues was synthesized and examined by proton and carbon-13 nuclear magnetic resonance (NMR) spectroscopy. The peptide contains four proline residues, and on the basis of NOEs and 13C chemical shifts was found to exist in an all-trans conformation. Molecular modelling based on this result provides evidence for a dynamic equilibrium between turn-like conformations in solution, the most populated of which is likely to be an S-shaped conformer, on the basis of amide exchange data.

Publication types

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

MeSH terms

  • Amino Acid Sequence
  • Binding Sites
  • Carbon Isotopes
  • DNA-Binding Proteins / chemistry*
  • High Mobility Group Proteins / chemistry*
  • Magnetic Resonance Spectroscopy*
  • Models, Molecular*
  • Molecular Sequence Data
  • Peptides / chemistry*
  • Protein Structure, Tertiary
  • Protons

Substances

  • Carbon Isotopes
  • DNA-Binding Proteins
  • High Mobility Group Proteins
  • Peptides
  • Protons