[Chimera-users] imgCIF files

[Elaine Meng]

Dear Mattia,
You can make a density map from atomic structures (or their parts) in Chimera using the "molmap" command:

<http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/molmap.html>

For example, commands:

open 2gbp
molmap ligand 4.5
molmap protein 5
 
... would make a map of resolution 4.5 for the ligand part of the structure (glucose) and another map of resolution 5 for the protein part of the structure.  You could also specify the whole structure, particular chains, etc.

If the SAXS model was in the form of a PDB file with the beads as "atoms," perhaps you could use a similar procedure.

I hope this helps,
Elaine
-----
Elaine C. Meng, Ph.D.                       
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On May 4, 2011, at 7:44 AM, Mattia Rocco wrote:
> 
> To the developers of Chimera: is there any intention of implementing the uploading of imgCIF density maps files? Such files can be generated by RasMol starting from either atomic structures or low-resolution bead models (e.g. SAXS-derived models).
> 
> Conversely, it would be nice if density maps could be generated within Chimera...
> 
> Best - Mattia
>