On Thursday 30 March 2006 11:24, Daniel Gutmann wrote: > I was recently looking at the 1JSQ a structure containing only the > alpha carbon trace. However pymol seems to be unable to join them > together for proper rendering. If anyone knows the required command > or plugin, I would be very grateful!
There is a setting called "cartoon_trace". By default it is set to zero and PyMOL will not connect Calpha atoms when the other atoms are absent. You can change the setting in the corresponding menu, or with the command set cartoon_trace,1 PyMOL should now draw cartoons through the Calpha positions, although it might get confused if there are multiple chains in the PDB file and connect the last atom of one chain to the first of antoher. In that case it will be necessary to create separate objects for the different chains. There is an analogous setting "ribbon_trace" for the ribbon representation. In this case, separate chains do not appear to get connected. -- Lieven Buts Ultrastructure Laboratory Vrije Universiteit Brussel
