On Oct 19, 2005, at 12:37 , Rolf Huehne wrote:
<snip>
Maybe I should tell what we want to do. We want to highlight exon
boundaries in protein structures. In order to be able to highlight for
example PROSITE motifs at the same time the best way would be to show
something between the two amino acids at the border. With pmesh this
would be a filled square, perpendicular to the trace between the amino
acids. With pseudo atoms in the corners of the square and bonds from
each atom to each other atom you would get a square with a cross
inside.
Not as good as a filled square but at least it could be labelled
and all
squares could be integrated into the PDB file as additional model.
this sounds pretty cool. so you want something like this:
AA1---AA2--AA3-|-AA4--AA5...
where the pipe represents your motif border?
it seems to me that it might be simpler to add a new kind of
annotation object (like a label, but a filled rectangular cube). i.e.,
set blocksize 12
color blocks red
block aa3,aa4
any thoughts?
tim
--
Timothy Driscoll
molvisions - see. grasp. learn.
<http://www.molvisions.com/>
earth:usa:virginia:blacksburg
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