 |
 |
phenix.elbow --chemical_component GOL will give you legitimate PDB and CIF files that you can use to model the map (PDB) and run refinements (CIF). Alternatively, compare files you get using above command with what you are using. Pavel P.S.: There is Phenix mailing list for Phenix-specific questions. On Fri, Dec 30, 2016 at 12:28 AM, Vikram Dalal <[log in to unmask]> wrote: > Hi everyone, > > > > I am solving a structure which has glycerol and we used ethylene glycol as > cryo protectant. I downloaded the pdb from rcsb for glycerol and generate > the cif file from eLBOW of phenix. I added the glycerol in the electron > density of the structure which look like for glycerol, but I am getting > this message when I run the phenix refinment (figure 1). Even I tried to > with cif generated from prodrg. I got the same error message. > > I have tried the same strategies for the ethylene glycol and I got the > error message in phenix refinment (figure 2). > > Even, I got the same error message in other computer. > > > > > Thanks & Regards, > > > > > > > >