Structural characterization of folded and unfolded states of an SH3 domain in equilibrium in aqueous buffer

Biochemistry. 1995 May 23;34(20):6784-94. doi: 10.1021/bi00020a025.

Abstract

The isolated N-terminal Src homology 3 (SH3) domain of Drosophila drk exists in equilibrium between folded and unfolded states in aqueous buffer near neutral pH. Nuclear magnetic resonance spectra recorded on both states simultaneously exhibit an approximate 1:1 ratio of protein conformations. The folded form is similar to other known SH3 structures, especially the N-terminal SH3 domain of the mammalian homologue GRB2. A stretch of sequential amide-amide nuclear Overhauser effect cross-peaks for resonances of the unfolded state is observed in a region corresponding to beta-strands in the folded state. The results suggest that turn-like conformations may be preferentially sampled in the folding pathway for this predominantly beta-structured SH3 domain. In addition, a stable turn at Leu-28 is observed in the unfolded but not in the folded state. Comparison of this unfolded form with a denatured state in 2 M guanidine hydrochloride shows that, while both are highly disordered, these states are not identical and more residual structure is present under nondenaturing conditions.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Sequence
  • Buffers
  • Drosophila Proteins*
  • Hydrogen Bonding
  • Hydrogen-Ion Concentration
  • Insect Hormones / chemistry*
  • Insect Hormones / genetics
  • Magnetic Resonance Spectroscopy
  • Molecular Sequence Data
  • Osmolar Concentration
  • Peptide Fragments / chemistry*
  • Protein Denaturation
  • Protein Folding*
  • Protein Structure, Secondary

Substances

  • Buffers
  • Drosophila Proteins
  • Insect Hormones
  • Peptide Fragments
  • drk protein, Drosophila