Hi Simon, What graphics program are you using to inspect the density? Are you reading in directly the maps produced by CNS or converting them to some other format? If you convert it, the most likely culprit is the conversion procedure...
Miguel 2007/6/27, Kolstoe S.E. <[EMAIL PROTECTED]>:
Dear CCP4 message board, I am having a problem with electron density that looks as if it has been compressed along the Y axis. Density that would appear as a sphere looks like an ellipsoid, and the effect seems worse in some regions (typically where I am having problems building in a flexible loop). It is worse in my Fo-Fc map (compared to my 2Fo-Fc) which makes me wonder if there is a problem with my calculated F's? Does anyone know of common reasons for seeing this effect, and how to fix it? (I processed the data in Mosflm, scaled in Scala, phased in phaser and then used the usf program dataman to pick my R free set and convert to cns format, and have been using anneal, minimize and model_map in CNS). Simon
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