[phenixbb] Phenix.refine peptide chain break
Pavel Afonine
pafonine at lbl.gov
Tue Jul 26 09:38:02 PDT 2016
Hi Jason,
could you please send me PDB file or fraction of it containing the brake
in question?
Pavel
On 7/26/16 07:54, Booe, Jason M (HSC) wrote:
> Dear all,
>
> I am refining a structure after renumbering my chain such that there
> is a gap in numbering (i.e. chain A ends at 350 and then starts again
> at 1000) as this has numbering has been recommended for us to use by
> the PDB for our fusion proteins. I'm having issues with Phenix.refine
> not understanding that their is still a peptide bond and breaks the
> chain and pushes the atoms away. There is no TER card between the
> chains and I've used LINK records as well to no avail. I'm wondering
> how to properly deal with this.
>
> Thanks,
> Jason
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