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Hi Gracie, 5CM is in the latest CCP4 dictionary, so refinement should work. Do you have the latest version? Is your DNA in the correct format (atom names have single quotes, not asterisks)? Could you be more specific about the error message you get (and which program you use)? Cheers, Robbie > -----Original Message----- > From: CCP4 bulletin board [mailto:[log in to unmask]] On Behalf Of > Gracie > Sent: Tuesday, August 13, 2013 11:48 > To: [log in to unmask] > Subject: [ccp4bb] 5CM > > Dear CCP4BB, > > I am working with 5’ methyl cytosine (5CM) double stranded methylated > DNA. However, when I try to run refinement, it could not identify the 5CM in > the PDB file. Is there any way to do so as I already tried to modify the PDB file > but it still shows error and the run was terminated. I was wondering if > anybody has any idea about this? It would be great if you have any > suggestions. Thank you in advance. > > Gracie