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On 18/12/2017 13:15, Smith Liu wrote: > Dear All, > > If I have a set of PDB with the corresponding density map, after I transform the PDB based on the suggestion > of everybody, is any way to transform the map so that the map will be fit with the transformed PDB? > Seeing as no-one else has mentioned it..., you can do this with Coot: Extensions -> Map -> Transform map by LSQ model fit... Or read the section 6.20 of the manual, titled "Map Transformation" Paul.