[PyMOL] Sticks and distances with individual transparencies

[Dr. M. M. <ma...@ma...>]

Dear All,

I'm trying to write a Pymol script with which produces a mixture of 
both solid and transparent sticks
I'm using the current 1.0 incentive release of MacPymol. After 
drawing all my sticks I issue following commands, but nothing changes 
although the log output suggests the change is being set.

PyMOL>set stick_transparency=0.2, /sca//A/228  and !mc
Setting: stick_transparency set for 5 atoms in object "mol1".

I'd also like to draw selected H-bonds with control of transparency
with the rest solid, but have no idea how to do this.

-- 
Mark Mayer Ph.D.
LCMN NICHD NIH DHHS
Bldg 35, Room 3B 1002 MSC 3712
35 Lincoln Drive
Bethesda MD 20892 3712
Phone: 301-496-9346 (office); 301-496-9347 (lab); FAX 301-496-2396
Lab web site: http://mayerlab.nichd.nih.gov

Send packages, Fedex and anything requiring a signature to:

Bldg 35, Room 3B 1004
35 Lincoln Drive
Bethesda MD 20892