• Protein Structure Refinement Server
  • Clicking the link above will load a page that will perform energy minimization on a near-native protein structure uploaded by the user (such as might be generated by homology modeling). The energy function used in the minimization is a potential of mean force (PMF) derived using known protein structures. The technique is described in the paper

    Summa CM and Levitt M Near Native Structure Refinement Using in vacuo Energy Minimization Proceedings of the National Academy of Sciences USA 2007 (104) 3177-3182 available here.