[phenixbb] Comprehensive validation fatal problems interpreting model

Oleg Sobolev osobolev at lbl.gov
Thu Jul 11 11:26:34 PDT 2019

Hi Ahmad,

The message says that you have unknown ligands and need to supply
information about them. There is a tool ReadySet under "Refinement"
category to generate this information. I'll send the outcome of this tool
off-list. Supply these files along with the model and everything should
work. Let us know if you have any questions.

Best regards,
Oleg Sobolev.

On Thu, Jul 11, 2019 at 9:51 AM Ahmad Khalifa <underoath006 at gmail.com>

> Hello,
> I have a fatal error with my model regarding a number of atoms with
> unknown nonbonded energy type symbol!
> I attached a screenshot of the error and my pdb, can you please help me
> debug the problem?
> Best regards.
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