I want to refine a PDB file with one zinc ion using 'SetupMetalsMover'.
I have added one zinc ion which is predicted to coordinate with cysteine and histidine.
I noticed there is 'CYZ.params' file and 'residue_types.txt' file ( '/database/chemical/residue_type_sets/fa_standard/residue_types.txt' file ) includes the 'CYZ.params'.
Then, I changed the residue name of cysteine to 'CYZ' (from CYS).
And then, I executed rosettascript to refine my pdb.