Offset Colour Triple +2 white [255,255,255] +3 magenta [255,0,255] +4 red [255,0,0] +5 orange [255,165,0] -3 cyan [0,255,255] -4 green [0,255,0] default yellow [255,255,0]
Q: Is there a literature reference I should read on this? If so, send it.
Q: Under what circumstances do you get bonding with residue -3 or -4? Can you give me an example pdb file so that I can see this?
This isn't anything peculiar to PDB files. It's just artist-license to color the hydrogen bonds any way you like. Really the command is
colour hbonds green
or
colour hbonds red
etc.
I can't help you with what the "offset" is all about.
Q: These are for proteins. Shouldn't there be another color (or set of colors) for nucleotide chains? What color should nucleotide hbonds be?
No, it's just artist preference.
Q: I always feel the need to play with colors ... Are these rgb values good?
As long as one can define user colors (can you?) it makes sense to stick with these standard colors.
Bob Hanson
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--
Robert M. Hanson, [EMAIL PROTECTED], 507-646-3107 Professor of Chemistry, St. Olaf College 1520 St. Olaf Ave., Northfield, MN 55057 mailto:[EMAIL PROTECTED] http://www.stolaf.edu/people/hansonr
"Imagination is more important than knowledge." - Albert Einstein
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