3D models

These are the models corresponding with the article
Sequence alignment study and model building by homology of HFE
F.Y.Dupradeau, B. Altenberg, R. Warin, V. Fuentes, J.-P. Monti, J. Rochette. BBA submitted.

Two slightly different models were built.

  1. In model one it was attempted to get all atoms for which the location is relatively certain modelled with the greatest precission. Little effort was invested in optimising the loops that had to be inserted and the loops that showed no homology between template and model.
  2. In model two more time and effort was invested in modelling the loops. We all know that modelling loops is nearly impossible with present day technology, but we tried anyway.... In this process MD programs were used. It is comonly known that these programs show little respect for the atomic inticacies of protein backbones. Consequently, the second model deviates about 0.5 Angstrom from the template in areas where one would normally not allow such deviations. We nevertheless present this model because the loops look more realistic, but more importantly, the loops are considered 'less wrong' by the WHAT_CHECK software.
  1. view or get model 1.
  2. view or get model 2.