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Hi Sarah,
The "problem" is with the drawing of the strand (or helix or coil),
which do not pass through the Calpha positions. But that is a feature,
not a failure, of the program. To avoid this you can draw as TURN which
does go through the Calpha positions but you loose the arrow cartoon.
Another option that may work is to draw the C-alpha with a slightly
larger radius. That may make it become embedded in the arrow and thus
show that this cysteine is part of that strand. Obviously, if you have
to make the Calpha to big it will look ridiculous as well. I'm afraid
there is no perfect solution but I hope this helps and others may have
better tricks for you.
Bart
Sarah Yohannan wrote:
Not directly a CCP4 problem, but just wondered if anyone knows what to
do: if you draw beta sheets in Molscript and smooth them, the c-alpha
atoms aren't necessarily on the sheet itself. When I draw a disulfide
bond, its very obvious that the atoms aren't on the sheet so it looks
like the atoms are in the wrong place, but its the sheet representation
really. Any ideas how to draw the disulfide so that the it doesn't look
ridiculous?
Sarah Yohannan
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==============================================================================
Bart Hazes (Assistant Professor)
Dept. of Medical Microbiology & Immunology
University of Alberta
1-15 Medical Sciences Building
Edmonton, Alberta
Canada, T6G 2H7
phone: 1-780-492-0042
fax: 1-780-492-7521
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