[phenixbb] phenix refine
sbiswas2 at ncsu.edu
sbiswas2 at ncsu.edu
Thu Jun 11 08:56:52 PDT 2009
Hi all,
I tried running phenix refine with a pdb file refined in cns. This has a
glycerol molecule in it. I got the following message:
Number of atoms with unknown nonbonded energy type symbols: 42
"ATOM 6921 OAA GLC J 1 .*.J "
"ATOM 6922 CAD GLC J 1 .*.J "
"ATOM 6923 CAF GLC J 1 .*.J "
"ATOM 6924 OAC GLC J 1 .*.J "
"ATOM 6925 CAE GLC J 1 .*.J "
"ATOM 6926 OAB GLC J 1 .*.J "
"ATOM 6927 OAA GLC J 2 .*.J "
"ATOM 6928 CAD GLC J 2 .*.J "
"ATOM 6929 CAF GLC J 2 .*.J "
"ATOM 6930 OAC GLC J 2 .*.J "
... (remaining 32 not shown)
Time building chain proxies: 11.79, per 1000 atoms: 1.69
Sorry: Fatal problems interpreting PDB file:
Number of atoms with unknown scattering type symbols: 42
Number of atoms with unknown nonbonded energy type symbols: 42
Does anyone know how to resolve this
thanks,
Shya
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