Houjin
How are you determining that the bonds are broken. Can you send me the
input and output PDB file along with the version you are using?
Nigel
On 7/11/2008 4:16 PM, houjin zhang wrote:
Hi:
I am trying to use phenix.elbow to generate restrains for a substrate.
I notice that the PDB file produced by elbow contains some broken
bonds. So I ran the elbow with the internal strings ATP. The output
PDB file also harbors broken bonds. The --opt did help a little. But
some bonds still look weird. I am wondering if this a bug or I just
didn't install phenix right. I use the latest version of phenix and
default setting.
Thank you very much!!
Houjin
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Nigel W. Moriarty
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