For some membrane protein (sequence known) I have found a pdb model that contains only coordinates for alpha carbons (and residue type). Which is the best method for adding/guessing the rest of the atoms pertaining to each residue supposing alpha carbon position is ok?
P.D. If I complete the structure using the sprout server or other, which program/method could I use later for performing energy minimization having already fixed alpha carbons?
P.D.2 Would a good post-approach be to do posterior energy minimization of the resulting structure fixing the alpha carbons? Restrained Molecular Dynamics? Restrained Protein Folding? Which would be the best software for this?