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In one of my structures at 2 Ang resolution , the final Rfactor and Rfree values were 21.9% and 22.4% respectively. I had ~18-19% total protein missing in the final model. All of this missing protein is completely disordered in all nucleosome structures known to date and likely have no or insignificant effect on the Rfactor and Rfree. The final model also had a lot else accounted for, namely, 100% of the DNA, ~900 water molecules, lots of ions and a ligand.
But had I omitted, say, 18-19% of structured helices from the protein model, the Rfactor and Rfree would increase significantly. Then, if I continued to refine without accounting for most of the model or without improving the model in any manner, I could expect to see an artificial lowering of the Rfactor without any further decrease in the Rfree and a resulting increase in the difference between the Rfactor and the Rfree.
I don't know what the nature of your 'missing residues' is. HTH. Raji Yi Xue wrote:
*** For details on how to be removed from this list visit the *** *** CCP4 home page http://www.ccp4.ac.uk *** Hi, all: If for a small protein, about 10% residues missing, will it affect the final R and Rfree? If yes, how serious will it be? thanks Yi
-- Raji Edayathumangalam Postdoctoral Fellow The Rockefeller University Box 224. 1230 York Avenue New York, NY 10021
