Inverse protein folding problem: designing polymer sequences.

  title={Inverse protein folding problem: designing polymer sequences.},
  author={Kai Yue and Ken A. Dill},
  journal={Proceedings of the National Academy of Sciences of the United States of America},
  volume={89 9},
We consider the question of how to design proteins. How can we find "good" amino acid sequences (i) that fold to a desired "target" structure as a native conformation of lowest accessible free energy and (ii) that will not simultaneously fold to many other conformations of the same free energy? Current protein designs often focus on helix propensities and turns. We focus here on designing the hydrophobicity. For a model of self-avoiding hydrophobic/polar chains on two-dimensional square… CONTINUE READING