Thank you, Elaine, I figured as much because I know that proteins are Chimera's strength. I'll fall back to the more primitive options like jmol and see how it goes. For the record, I think the unit cell is rendered correctly, but the coordination bonds are noted to be between the metal center and groups that are one cell away. --Payam
-----Original Message----- From: Elaine Meng [mailto:meng@cgl.ucsf.edu] Sent: Friday, October 06, 2017 1:29 PM To: Minoofar, Payam N Cc: chimera-users@cgl.ucsf.edu Subject: Re: [Chimera-users] Chimera for MOFs
Hi Payam, It’s not MOFs per se, but the format. Chimera reads mmCIF format, such as from the Protein DataBank. <http://mmcif.wwpdb.org/>
However, CIF format in general is a much broader specification, of which several possible sections (depending on the specific file) are not handled by Chimera, or at least are not handled correctly. Sorry about that. I’ve run up against this too, when trying to view some structure of interest from the Cambridge Structural Database.
I hope this clarifies the situation, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Oct 6, 2017, at 10:14 AM, Minoofar, Payam N <Payam.Minoofar@Teledyne.com> wrote:
Greetings and Salutations, I recently started using Chimera to view .cif files for metal organic framework (MOF) unit cells, and I get the impression that Chimera is not quite rendering them correctly. I thought I’d ask the community if visualizing MOFs is a priority for Chimera before I start whinging. (No, I’m not British.)
If it is a priority, to whom can I mail the cif files in order to determine whether the problem lies with Chimera or with the file? Many thanks, Payam