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This might help: Acta Cryst. (1997). D53, 540-543 Local Improvement of Electron-Density Maps Pavel. PS> It will be implemented in PHENIX sometime in future, but for the moment you will need to so some scripting. On 12/8/2008 11:08 AM, Andy Millston wrote: > I am trying to build a model of a 60000 Da protein from the > diffraction data collected at 2.0 A resolution. There is a 10-residue > stretch that has such bad electron density that even at 0.4 sigma > level one can hardly see any well defined density for residues with > long side chains. > > My question is: are such poorly defined regions left unmodeled in > protein structures? Or is it conventional to model the whole chain no > matter how poor the density? The region in question is in the middle > of the chain and has several long side chain residues - both charged > and uncharged. > > AM > > >