Hey,
(I sent the structure in the second e-mail as a zip file, but apparently, the
Harvard mail system blocked it)
I also understood what was going on. The structure [2] is a very raw, early
stage of our simulation, full of clashes (and the file has no CONECT in it).
When I `set connect_mode,
Interestingly,
set auto_show_classified, off
is the best way to solve it (the Line representation works)!
Magnus
[sc 2024-10-31 at 18.56.17.jpeg]
https://pymolwiki.org/index.php/Auto_show_classified
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