Computer-based redesign of a protein folding pathway

Nat Struct Biol. 2001 Jul;8(7):602-5. doi: 10.1038/89638.

Abstract

A fundamental test of our current understanding of protein folding is to rationally redesign protein folding pathways. We use a computer-based design strategy to switch the folding pathway of protein G, which normally involves formation of the second, but not the first, beta-turn at the rate limiting step in folding. Backbone conformations and amino acid sequences that maximize the interaction density in the first beta-hairpin were identified, and two variants containing 11 amino acid replacements were found to be approximately 4 kcal mol-1 more stable than wild type protein G. Kinetic studies show that the redesigned proteins fold approximately 100 x faster than wild type protein and that the first beta-turn is formed and the second disrupted at the rate limiting step in folding.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Sequence
  • Bacterial Proteins / chemistry*
  • Bacterial Proteins / genetics
  • Bacterial Proteins / metabolism*
  • Circular Dichroism
  • Computer Simulation*
  • Guanidine / pharmacology
  • Kinetics
  • Models, Molecular
  • Mutation / genetics
  • Protein Conformation
  • Protein Denaturation / drug effects
  • Protein Engineering*
  • Protein Folding*
  • Thermodynamics

Substances

  • Bacterial Proteins
  • Ig L-binding protein, Peptostreptococcus
  • IgG Fc-binding protein, Streptococcus
  • Guanidine