[phenixbb] coot add residue issue
Heather L Condurso
condurso at bc.edu
Tue Aug 20 12:25:17 PDT 2013
Thank you all. I do not know what solved my issue but I deleted many UNK
residues that though having a lower number came after the end of my chain
in the pbd file and now it is working. I had tried real space refine and
moved it manually but without avail. Maybe this version of coot
0.6.2-pre-1 is unhappy with pdb from phenix autobuild/refine.
On Tue, Aug 20, 2013 at 3:18 PM, Ursula Schulze-Gahmen <
uschulze-gahmen at lbl.gov> wrote:
> I am using the stand alone version of coot and I am adding terminal
> residues all the time. I have the same experience as you do , that the
> residue is usually added far away from the end of my chain. I then move it
> into a sensible position relative to the chain end and refine the geometry
> on coot. I have never seen the residue moving back to its original
> position. Perhaps try the stand alone version of coot and see if it works
> there for you.
> On Tue, Aug 20, 2013 at 11:53 AM, Heather L Condurso <condurso at bc.edu>wrote:
>> Dear all,
>> I have been trying to add a residue to my model in coot for hours now.
>> The add terminal residue function adds a residue far from the end of my
>> chain and I've tried moving it manually and it keeps going back and it
>> never makes a bond between the two amino acids. Is there a trick in coot
>> or a better way to do this in phenix?
>> Heather Condurso
>> UF-Department of Chemistry
>> phenixbb mailing list
>> phenixbb at phenix-online.org
> Ursula Schulze-Gahmen, Ph.D.
> Assistant Researcher
> UC Berkeley, QB3
> 356 Stanley Hall #3220
> Berkeley, CA 94720-3220
> phenixbb mailing list
> phenixbb at phenix-online.org
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