Hi Maiclo,
> After I make Molecular replacement with Phaser and combine the resulting > mtz and the anomalous .mtz using CAD, I obtain an anomalous map which shows > me good anomalous signal. I'm displaying this map in coot by choosing in the > expert mode the labels DANO and PHWT (or PHIC together with FOM). So far so > good, the problem comes when I start my refinement using Phenix. After the > refinement round I combine again my anomalous .mtz and the mtz file from the > phenix round. Then I go to coot and choose the labels DANO and PH2FOFCWT, > but then what I see is a map that looks more like noise. > > Can somebody tell me if I'm doing something wrong?. Should I only use the > anomalous map after the phaser round ? > I'm not sure why you combine these files... After phenix.refine refinement you get all maps you normally need: mFo-DFc, two 2mFo-DFc (one computed using original Fobs and another one using original Fobs plus DFc filled instead of missing Fobs), and anomalous difference map (if you were refining against anomalous data). Let me know if have any questions. Pavel.
