Alpha-synuclein tertiary contact dynamics

J Phys Chem B. 2007 Mar 1;111(8):2107-12. doi: 10.1021/jp068604y. Epub 2007 Feb 6.

Abstract

Tertiary contact formation rates in alpha-synuclein, an intrinsically disordered polypeptide implicated in Parkinson's disease, have been determined from measurements of diffusion-limited electron-transfer kinetics between triplet-excited tryptophan:3-nitrotyrosine pairs separated by 10, 12, 55, and 90 residues. Calculations based on a Markovian lattice model developed to describe intrachain diffusion dynamics for a disordered polypeptide give contact quenching rates for various loop sizes ranging from 6 to 48 that are in reasonable agreement with experimentally determined values for small loops (10-20 residues). Contrary to expectations, measured contact rates in alpha-synuclein do not continue to decrease as the loop size increases (>/=35 residues), and substantial deviations from calculated rates are found for the pairs W4-Y94, Y39-W94, and W4-Y136. The contact rates for these large loops indicate much shorter average donor-acceptor separations than expected for a random polymer.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Sequence
  • Electron Transport
  • Molecular Sequence Data
  • Protein Conformation
  • Tryptophan / chemistry*
  • Tyrosine / analogs & derivatives*
  • Tyrosine / chemistry
  • alpha-Synuclein / chemistry*

Substances

  • alpha-Synuclein
  • 3-nitrotyrosine
  • Tyrosine
  • Tryptophan