[Chimera-users] Re: chimera questions

Thomas Goddard goddard at cgl.ucsf.edu
Thu Jun 10 15:44:36 PDT 2004

Hi Wen

  You can write out coordinates of a PDB model relative to another model
such volume you hand docked to, using Model Panel (under Favorites menu
or Tools/Inspectors menu).  Show the Model Panel dialog, click on the PDB
model in the list, press the "Write PDB" button in the right column of
the Model Panel.  Then a Save file dialog comes up and at the bottom is
a checkbutton that says "Save relative to model chosen in model panel when
'OK' is hit".  You then click on the volume listed in the Model Panel that
the PDB coordinates should be relative to.  Then press OK in the Save dialog.
A bit crazy.  We'll probably improve this confusing interface in a future


> From: Wen Jiang <wjiang at bcm.tmc.edu>
> Subject: Re: chimera questions
> Date: Thu, 10 Jun 2004 17:06:28 -0500
> To: Thomas Goddard <goddard at cgl.ucsf.edu>
> Tom,
> Is it possible to do manual fit of PDB to a density map in Chimera then 
> save the transformed PDB coordinates to a new PDB file? If it is not 
> possible, how to read out the transformations applied to the PDB model?
> Thanks,
> Wen

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