Sequence Tolerance Server Documentation


The Sequence Tolerance application predicts the relative frequencies with which amino acid residues are predicted to be "tolerated" without significantly compromising the stability of a given protein-protein interface and the respective interacting partner proteins. The process is as follows: Sequence Tolerance flow Sequence plasticity predictions more closely mimic experimentally determined interface tolerances when made over an ensemble of backrub generated backbones.

Sequence Tolerance basic application


  1. The application works best at up to six designed residues. The length of processing is tailored to sample sufficiently for this number of designed positions. Using more than six designed positions is currently discouraged.


You need to input:

  1. Starting pdb file
  2. At least one designed position

Interpreting Results

  1. Todo:


We would be grateful if you cite our work in publications that make use of the server:

  1. Smith CA, Kortemme T (2010).Structure-Based Prediction of the Peptide Sequence Space Recognized by Natural and Synthetic PDZ Domains. Journal of Molecular Biology, Volume 402, Issue 2, 17th September 2010, Pages 460-474.
  2. Smith CA, Kortemme T (2011).Predicting the Tolerated Sequences for Proteins and Protein Interfaces Using Rosetta Backrub Flexible Backbone Design. PLoS ONE 6(7): e20451. doi:10.1371/journal.pone.0020451

More questions?

We welcome scientific and technical comments on our server. For support please contact us at Rosetta Forums with any comments, questions or concerns.