Dear PyMol users, 1. I'm puzzled with a coloring problem while coloring a protein molecule accordingly to its secondary structure by using 'discrete color' option: If there are a helix and/or strand adjacent together (e.g. helix from 1-10 and sheet from 11-20) the small pseudo-loop region between (arising from atoms between last Calpha of the helix and first Calpha of the strand) gets colored like the latter partner (maybe because of its color was defined at last). What I'd like to do is to color this small pseudo loop in a different color. I've tried to color the atoms between last Calpha and next Calpha (C,N) individually but there was no effect. It seems to me, that cartoon coloring only corresponds to Calpha positions. So, is there a way around to color cartoon regions between secondary structure elements as described before?
2. Is there a way to force PyMol to draw a cartoon which shows two different secondary strcuture elements (helix, strand) ending and beginning at the same residue? Maybe one can image a scenario where the N atom makes a strand-like conformation while the CO group of the same residue starts with a helix. In another program it is/was possible to assign helix and strand ending and beginning in the same residue but when I try to perfom with PyMol only the last partner is shown correctly while the first partner gets overrided in its last residue, e.g. cartoon "strand 1-10" and "helix 10-20" looks the same like "strand 1-9" and "helix 10-20". How one could circumvent this dilemma? Many thanks in advance! Greetings, Bartholomeus
