[Chimera-users] zone command
chiendarret at gmail.com
Fri Oct 2 11:08:46 PDT 2009
I prepared with the zone command a model (#0) of a protein partly
immersed into a hydrated lipidic bilayer (cut-and-paste from the two
models from the zone command).
Now I would like to solvate with water the part of protein which
protrudes out of the bilayer.
Water is single-point (coarse-grain simulations) indicated in model #0 as
ATOM 2724 W W 2060 45.420 3.750 23.380 1.00 0.00 W
and in the pdb file of the water block (model #1) to be added
ATOM 27558 W W 5018 84.320 142.862 11.262 1.00 0.00
Once model #0 and model #1 are superimposed, clearly the zone command
does not distinguish W from the two models.
How could the zone command be made working now? I renamed W to WAT in
model #1 but the zone command does not recognizes WAT under such
circumstances. Not yet found a way out, which should be simple. Thanks
(solvating model #0 with programs from the MD suite also solvates what
it should not; this is why I am trying with CHIMERA)
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