[phenixbb] constrain insertion codes to unit occupancy?
Georg Mlynek
georg.mlynek at univie.ac.at
Sat Oct 15 15:39:35 PDT 2016
Dear Henry, you can find the answer here
https://www.phenix-online.org/newsletter/CCN_2015_07.pdf#page=12
example 5. Unfortunately 1EJG does not open in coot, because of a
coordinate read error
ERROR 42 READ: Duplicate sequence number and insertion code.
LINE #875
ATOM 414 CA BSER A 22 6.034 13.399 -2.687 0.21 1.55
However pymol works.
The example is crambin
Here is pasted and changed a bit one sentence from the newsletter:
If residuenumber and chain ids are identical,while altloc are different,
as well as residue names are allowed to be different.
So you have to remove
27 AChar iCode Code for insertion of residues.
this should work
ATOM 6500 CA ACYS B 101
ATOM 6490 CA BXXX B 101
Phenix will handle this then automatically.
Best regards, Georg.
On 10/15/2016 11:15 PM, van den Bedem, Henry wrote:
>
> Hi:
>
> I’m refining a site where there’s two compounds, each at partial
> occupancy. I modeled that using alt codes and insertion codes
> combined, like this
>
> ATOM 6500 CA ACYS B 101B
>
> ATOM 6490 CA BXXX B 101A
>
> How can I constrain the occupancies so that they sum to unity? I tried
> several option, but the distinct insertions seem to refine
> independently. Sorry if a similar question has been posted before, but
> I could not find a solution searching phenixbb.
>
> Thanks!
>
> Henry
>
>
>
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