Deconstruction of the Ras switching cycle through saturation mutagenesis

Elife. 2017 Jul 7:6:e27810. doi: 10.7554/eLife.27810.


Ras proteins are highly conserved signaling molecules that exhibit regulated, nucleotide-dependent switching between active and inactive states. The high conservation of Ras requires mechanistic explanation, especially given the general mutational tolerance of proteins. Here, we use deep mutational scanning, biochemical analysis and molecular simulations to understand constraints on Ras sequence. Ras exhibits global sensitivity to mutation when regulated by a GTPase activating protein and a nucleotide exchange factor. Removing the regulators shifts the distribution of mutational effects to be largely neutral, and reveals hotspots of activating mutations in residues that restrain Ras dynamics and promote the inactive state. Evolutionary analysis, combined with structural and mutational data, argue that Ras has co-evolved with its regulators in the vertebrate lineage. Overall, our results show that sequence conservation in Ras depends strongly on the biochemical network in which it operates, providing a framework for understanding the origin of global selection pressures on proteins.

Keywords: E. coli; S. cerevisiae; allostery; biophysics; evolution; protein dynamics; structural biology; systems biology.

Publication types

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

MeSH terms

  • Conserved Sequence
  • DNA Mutational Analysis
  • Evolution, Molecular
  • Humans
  • Mutagenesis
  • Protein Interaction Maps
  • ras Proteins / genetics*
  • ras Proteins / metabolism*


  • ras Proteins