Though I like our program HOLLOW for visualization, I think the tool for this
job is MOLE (http://mole.chemi.muni.cz). You can use the online version to
quickly generate two trajectories out from the center of the channel. MOLE has
some mathematical advantages over HOLE or Caver. You then merge
you are nearly finished because it is really slow) and open the
channel by using the cylindrical search and hide surface for the generated
object with q=0 to open the channel.
Good luck.
Franz Gruswitz
Department of Biochemistry and Biophysics
UCSF Mission Bay
600 16th St. S414
San Francisco, CA 94158
I like the standard Classics, PEGs 1 and 2, as well as the ProComplex screens.
We also use
Molecular Dimensions MemStart/MemSys and the Axygen High Probability Peg
Screen. Good
luck.
Franz
On Thu, 12 Mar 2009 16:03:10 -0400, JOE CRYSTAL wrote:
>Sorry for the off-topic subject. I am new to
