[PyMOL] (no subject)

[Joseph Fernandez]

There is a very useful functionality in Sybyl, whereby
the user can merge a residue from one molecular
area, into another molecular area.  The residue then
becomes a part of the latter moleculear area, without
deleting it.  I wonder whether there is such a
functionality in PyMol.  

As an example, I have created a new object, consisting
of several residues that I have extracted from the
active site of a protein (using the create command). 
I then deleted these residues from the original object
(active site of protein).  I now want to merge an
additional residue from the active site into the
ligand object, and delete the residue from the active
site, but without deleting the ligand object.

Any assistance on this matter would be appreciated.

Joe




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RE: [PyMOL] (no subject)

[Warren DeLano]

Yes, the create command provide you with this ability, though at the end
of the process you end up with a new object.

create new_object, old_object1 | old_object2

In some cases, new_object can be the same name as either old_object1 or
old_object2:

create old_object1, old_object1 | old_object2

Also note that the vertical bar (the or operator) is optional in
recent betas, so

create old_object1, old_object1 old_object2

becomes legal.

Cheers,
Warren

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 -Original Message-
 From: pymol-users-ad...@lists.sourceforge.net 
 [mailto:pymol-users-ad...@lists.sourceforge.net] On Behalf Of 
 Joseph Fernandez
 Sent: Sunday, September 25, 2005 11:19 AM
 To: pymol-users@lists.sourceforge.net
 Subject: [PyMOL] (no subject)
 
 There is a very useful functionality in Sybyl, whereby the 
 user can merge a residue from one molecular area, into 
 another molecular area.  The residue then becomes a part of 
 the latter moleculear area, without deleting it.  I wonder 
 whether there is such a functionality in PyMol.  
 
 As an example, I have created a new object, consisting of 
 several residues that I have extracted from the active site 
 of a protein (using the create command). 
 I then deleted these residues from the original object 
 (active site of protein).  I now want to merge an additional 
 residue from the active site into the ligand object, and 
 delete the residue from the active site, but without deleting 
 the ligand object.
 
 Any assistance on this matter would be appreciated.
 
 Joe
 
 
   
   
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 Yahoo! for Good
 Donate to the Hurricane Katrina relief effort. 
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