Waight, Andrew schrieb:
Hello everyone I have a question for the experts.
I am in the final stages of refining my model placing waters and whatnot. However when I refine my model against the pure scalepack output, I see some rather signifigant negative difference density
Hi Andrew,
If there is no *protein* model built into this region of the map, then it
will be modelled by the bulk solvent correction - therefore, the negative
peaks are telling you that the mean electron density there is lower than
in the bulk solvent. Probably.
Joe
> Hello everyone I have a ques
Yes, I've seen this behavior. I attribute it to lack of the 0,0,0 and ultra-low
resolution reflections. Remember that the average density in a map (with
difference
coefficients or whatever) is zero. That means that if the model lacks a few
atoms,
but has no atoms that don't belong, so that an ab
