Eric, I can see what you mean; I've had this problem before with other PDB files (1GC1). The problem is in the numbering; the carbohydrate residues are numbered 901, 902, clustered at the end of the amino acids. I agree this is undesired, but can't see how Jmol can be blamed for it, or imagine how to fix it. The same could happen if the amino acid residues in the file were numbered not following their position in space.
As a general discussion on Jmol schematic renderings for carbohydrates: As far as I know, Jmol understands several carbohydrate residue names and can draw trace (and, so it seems, ribbons) between them. I've used this before to my advantage in drawing a spiral trace for amylose, for example. I dont' think that the capability to recognize carbohydrate chains as so, and draw for them some kind of schematic rendering -as for proteins and nucleics- is a bad thing, and certainly not a bug. It's true that carbohydrate recognition is still limited, and their schematic rendering is so too; I seem to recall that Bob mentioned the inability to render cartoons is related to the lack of a reference atom set upon which to base the direction of the ribbon. Anyway, for your problem the fix would be to restrict selection to protein before using "ribbons", right? Regards, ------------------------------------------------------------------------- This SF.net email is sponsored by: Microsoft Defy all challenges. Microsoft(R) Visual Studio 2008. http://clk.atdmt.com/MRT/go/vse0120000070mrt/direct/01/ _______________________________________________ Jmol-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/jmol-users
