[Chimera-users] exporting a mineral structure as VRML
pett at cgl.ucsf.edu
Wed Apr 11 11:29:39 PDT 2007
I have also fixed the code to skip forming these metal complexes for
large inorganic residues. If you are going to be working with many
of these files I can send you the fix.
On Apr 11, 2007, at 11:22 AM, Greg Couch wrote:
> On Wed, 11 Apr 2007, Janet Iwasa wrote:
>> I'm trying to use Chimera to export a mineral file (
>> soil_smectite.pdb) as a
>> ball and stick VRML structure, but I'm running into a bit of
>> since some of the bonds don't get made into sticks -- rather, they
>> appear as
>> purple dotted lines in the viewer. Any suggestions on how to get
>> bonds to be made into geometry?
> Hi Janet!
> There are two ways to convert the dashed lines in the metal
> complexes to sticks:
> 1) Select one of the lines with the mouse, type the up-arrow key, to
> select all of the similar bonds, then use the selection inspector
> at bottom right of main window), to change the bond style to
> stick. In
> your example there are three different groups, one each for Al, Fe,
> 2) Use the Tools / General Controls / PseudoBond Panel dialog,
> select each
> coordination complex in turn and click the attributes... button, then
> click the Component PseudoBond Attributes button to expose the bond
> option and change the bond style to stick.
> Once the dashed lines are converted to sticks, they will export as
> - Greg
> Chimera-users mailing list
> Chimera-users at cgl.ucsf.edu
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