Hi Andre,

- How can F(000) be best estimated from the final model, which is not
> necessarily always the most complete or best refined? Should we simply add
> together the number of electrons for all the atoms refined in the
> asymmetric unit (protein + ligands + solvent)?
>

the text here explains how to do this:

"On the analysis of residual density distributions on an absolute scale"
http://phenix-online.org/newsletter/CCN_2012_07.pdf

Also, there is a Phenix tool to do this:

phenix.f000

Good luck,
Pavel

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