Hi Zhiyi,
I am trying to refine a structure with two domains. The electron > density of one domain is reasonable, but that of the other domain is > poor. So, I am wondering whether the refinement by Phenix or Refmac > can be done locally with two parts, the first domain is refined with > normal restrains, the second domain is refined by rigid body and group > B? > yes, you can do it in Phenix. Such functionality is exemplified for example here: see page 6: http://www.phenix-online.org/presentations/latest/pavel_phenix_refine.pdf Let me know if you have any questions. Pavel