[Chimera-users] About direct fetching biological assemblies into Chimera

Boaz Shaanan bshaanan at bgu.ac.il
Tue Jun 3 05:52:50 PDT 2014


Hi Tom,

This is a nice addition but can you ALSO give the option of fetching just one of the biological assemblies? It is my experience that biological assemblies for a particular pdb entry consist of one correct assembly, in the sense of biological function corresponding to the description given by the depositors and other assemblies. I usually flip between the assemblies on the RCSB website before deciding which one to fetch. With your new addition this of course can all be done now in Chimera but if possible, I'd rather not waste time and disk space with meaningless assemblies. What do you think?

   Cheers,

         Boaz   

Message: 6
Date: Mon, 2 Jun 2014 16:53:06 -0700
From: Tom Goddard <goddard at sonic.net>
To: "Hurt, Darrell (NIH/NIAID) [E]" <darrellh at niaid.nih.gov>
Cc: "chimera-users at cgl.ucsf.edu BB" <chimera-users at cgl.ucsf.edu>
Subject: Re: [Chimera-users] Fetch biological unit?
Message-ID: <0086EC78-81D4-4892-9A22-A4177426F74D at sonic.net>
Content-Type: text/plain; charset=windows-1252

Hi Darrell,

  I added a Chimera Fetch dialog entry ?PDB biounit? that will fetch all the biological assembly files for a pdb id ? there can be more than one.  Also they can be fetched using the Chimera command:

        open pdbbuID:2bbv

  Will be in tonight?s daily build.

        Tom

Boaz Shaanan, Ph.D.
Dept. of Life Sciences
Ben-Gurion University of the Negev
Beer-Sheva 84105
Israel

E-mail: bshaanan at bgu.ac.il
Phone: 972-8-647-2220  Skype: boaz.shaanan
Fax:   972-8-647-2992 or 972-8-646-1710




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