[Chimera-users] Sampling the density of a map in the vicinity of each atom in a model

Mario J. Borgnia mborgnia at helix.nih.gov
Sun Mar 22 10:41:54 PDT 2015

I have a density map in mrc format and a model in pdb format. I would
like to calculate the average density within a 3D window centered at the
coordinates of each atom in the model and include the result as an
attribute for the atom. Despite some effort searching for the answer, I
cannot find out how to do this easily. I could try and go deep into
Python programming but, before I reinvent the wheel, I'd like to know
whether there already is a simpler way to do this in Chimera.



| Mario J. Borgnia, Ph. D.        |
|                                 |
| Lab of Cell Biology             |
| NIH NCI/CCR                     |
| 50 South Drive Rm 4306 MSC 8008 |
| Bethesda MD 20892-8008          |
|                                 |
| Tel: (301) 594 0563             |
| mborgnia at nih.gov                |

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