Dear UCSF ChimeraX,
I have a practical question regarding model sequence visualization after real.space.refinement in phenix.
After I worked on my model in ISOLDE and Coot, I deleted some residues that were out of the map density. Then, a dashed line appeared in my model, connecting the gap between the
remaining residues (example, ALA97------GLN110). When I visualize the model sequence in ChimeraX, the deleted residues appear boxed with a rectangle, to indicate they are missing in the structure.
Once I get the results back from the phenix real.space.refinement, and I visualize the model sequence in ChimeraX again, the deleted residues do not appear boxed anymore, but they
are gone instead from the visualized sequence, keeping their corresponding numbers but not showing a boxed gap (in the example I mentioned they jump from 97 to 110 directly).
I would like to keep the deleted residues boxed in the sequence when I visualize it.
Is that possible?
Hope I am explaining myself.
Thanks and best regards,
Leyre
Leyre Marin Arraiza
PhD fellow
University of Copenhagen
Novo Nordisk Foundation Center for Protein Research
Taylor Group
Blegdamsvej 3B, Building 6, 6-1-10
2200 København N
