[chimerax-users] [Chimera-users] CjimeraX PDB save

[Eric Pettersen]

Hi John,
	The PDB format only supports single-character chain IDs (one of the reasons for mmCIF format), so it is impossible to save structures with more than 36 chains in PDB format without losing chain information.
	A semi-workaround is to:

1) In ChimeraX: split the structure into multiple structures, one per chain (“split #1”)
2) Save those models into a multi-MODEL PDB file (“save ~/rib.pdb models #1”)
3) Read them into Chimera.
4) If there are <= 36 models, combine them into a single model (“combine” button of the Model Panel), otherwise you just have to work with them as separate models.

—Eric

	Eric Pettersen
	UCSF Computer Graphics Lab


> On Apr 2, 2018, at 2:29 PM, John Mercer, Ph.D. <jmercer at duke.edu> wrote:
> 
> Hi Elaine,
> 
> I load a ribosome mmcif file in ChimeraX and save it at as a PDB file. It loads and works fine in Chimera but all the chain identifiers have disappeared. Is there away to save a PDB file from ChimeraX that retains the identifiers? I am wanting to use the larger set of tools in Chimera when only mmcif files are available. 
> 
> Best,
> -John
> _______________________________________________
> Chimera-users mailing list: Chimera-users at cgl.ucsf.edu
> Manage subscription: http://www.rbvi.ucsf.edu/mailman/listinfo/chimera-users

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://plato.cgl.ucsf.edu/pipermail/chimerax-users/attachments/20180402/e7c40127/attachment.html>