I think this is related to the way the ribbon/cartoon smooths over secondary structures. Beta strands are wavy not flat, for example. There is a similar problem in PyMOL. If we want to show a whole residue then the best way to do that is to turn off the flat strands and the idealisation of helices. PyMOL also has a feature called "side chain helper" where the bonds are connected to the idealised calpha location rather than the actual calpha atom location, which may be a nice feature to have in chimerax too. Best wishes James "Anderson, Jacob via ChimeraX-users" <chimerax-users@cgl.ucsf.edu> escribió:
There has been a prior post on this problem, but I wanted to ask about some asymmetry I see in ChimeraX when displaying residues emanating from ribbons/cartoons.
https://www.rbvi.ucsf.edu/pipermail/chimerax-users/2021-October/002850.html
For example, sometimes when I select a residue on a ribbon/cartoon and write "show sel atoms,bonds", I get a floating residue. However, other times I get a nice connection between the beta carbon and the ribbon (the desired behavior).
How can users get a consistent behavior where there is a connection from the beta carbon to the ribbon?
Good Example - connected to ribbon [cid:6ddcc2ee-f9b2-4060-8e3f-fde8ccc74881]
Two floating examples: [cid:46516984-036d-4a39-9713-9056a161548a]