Hi Andrew, You might try contacting Monica Zoppe (in Pisa, Italy) - she has experience importing PDB data into Blender. Here is her site: http://www.scivis.ifc.cnr.it/ Her e-mail: Monica Zoppè <mzoppe@ifc.cnr.it> Hope this is helpful, -Gael. ------------------------- Gaël McGill, Ph.D. Director of Molecular Visualization Center for Molecular & Cellular Dynamics Harvard Medical School www.molecularmovies.org President & CEO Digizyme, Inc. P.O. Box 1921 Brookline, MA 02446-1921 (617) 232-7676 (phone) (617) 232-5623 (fax) mcgill@digizyme.com www.digizyme.com On 9/16/09 3:00 PM, "chimera-users-request@cgl.ucsf.edu" <chimera-users-request@cgl.ucsf.edu> wrote:

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Today's Topics:

1. Re: Exporting from Chimera to Blender - basic questions. (Tom Goddard)

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Message: 1 Date: Tue, 15 Sep 2009 23:03:03 -0700 From: Tom Goddard <goddard@cgl.ucsf.edu> Subject: Re: [Chimera-users] Exporting from Chimera to Blender - basic questions. To: "Waight, Andrew" <Andrew.Waight@med.nyu.edu> Cc: "chimera-users@cgl.ucsf.edu" <chimera-users@cgl.ucsf.edu> Message-ID: <4AB07F97.6080108@cgl.ucsf.edu> Content-Type: text/plain; charset=ISO-8859-1; format=flowed

Hi Andrew,

Chimera exports the surface vertex and individual atom and ribbon residue colors in the X3D and VRML output. If you raytrace a scene with Chimera File / Save Image... it first exports X3D and then converts that X3D to input for POVray which does get all the colors right. So I think your question calls for some expertise with Blender, to find out what color information it can handle when importing those files. I don't know anything about Blender.

Tom

-------- Original Message -------- Subject: [Chimera-users] Exporting from Chimera to Blender - basic questions. From: Waight, Andrew <Andrew.Waight@med.nyu.edu> To: chimera-users@cgl.ucsf.edu <chimera-users@cgl.ucsf.edu> Date: 9/15/09 10:31 AM

...

Hello all,

I have recently solved the structure of a novel membrane protein, and have been using chimera quite a bit for my figures and analysis. In my free time I have been playing around with the 3D animation package Blender which I must say is a total blast, and makes fantastic movies and animations. However exporting from Chimera to Blender is a little tricky, in that when using VRML2 or X3D formats while the actual 3D "mesh vertices" import quite well, the colors are not imported, and imported items such as cartoon helices seem to have totally random materials assigned to nonsensical segments (instead of materials assigned by chain for example) . Ideally I would like to perform and export the coloring operations using chimera because it's obviously an order of magnitude easier to select residues, chains and monomers with chimera. Or at least have the grouping of objects imported correctly. This is really just for fun so I'd thought I'd ask if anyone here has any experienc! e ! with importing Chimera models into Blender. Of course I have no idea how VRML2 actually works. Thanks all.

Andrew Waight Wang Lab Skirball Institute of Biomedical Sciences NYU School of Medicine

P.S. Extra Credit: Does anyone have any idea how to export the calculated electrostatic surface into UV mapping for a Blender Object (the surface mesh obviously)?

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End of Chimera-users Digest, Vol 77, Issue 16 *********************************************