[Chimera-users] Re: Save options

[Eric Pettersen]

On Jun 24, 2004, at 2:30 PM, Karl N. Kirschner wrote:

> Hi,
>   We are looking at chimera to use in our department here at Hamilton.
> I am currently evaluating it and I was wondering is there a way to save
> a structure under a different format other than filename.py (ie PDB)?
> From your website it appears that one should be able to do this.  We 
> are
> using the chimera-1.1951-linux.exe and chimera-1.1917-linux_x86_64.exe
> versions of the program. Maybe it is a bug - or maybe I am not just
> seeing something.
>
> Thanks,
> Karl

Hi Karl,
	You can write out structures in PDB format either using the "write 
PDB" button of the model panel (Favorites..Model Panel in the menus), 
or by using the "write" command in the command line ("help write" will 
provide details of using the write command).  Both of these methods 
save the entirety of the models specified, displayed or not.  To save 
parts of models, one can either delete the unwanted portions 
(Actions..Atoms/Bonds..delete in the menus or using the "delete" 
command), or (on UNIX-based systems) use the pdbrun command to output 
only the displayed portions ("help pdbrun" for details).
	Please feel free to ask about any other things that may not be obvious 
-- it helps us to refine the usability of Chimera's interface.  I 
should note that usage-style questions like these should probably go to 
the chimera-users mailing list rather than chimera-bugs though.  Thanks 
for giving Chimera a try!

	Eric Pettersen
	UCSF Computer Graphics Lab