[PyMOL] incomplete secondary structure

[h. a. s. <h.a...@gm...>]

Hi all,

When I open 3jav the backbone shows many helices, but Pymol doesn’t draw them as helices when showing the cartoon. Clearly there is something that is not perfect with the deposited cyro structure.

If I run the dss command, the cartoon structure isn’t fixed, and I get repeats of the following error for each residue from 1-2750 for each chain: 
 AssignSS-Warning: Ignoring incomplete residue /3jav//D/2750  …

Does anyone know how I can fix the secondary structure without having to manually assign it to each helix?

Thanks!


Adam