[Chimera-users] Electron density map around selected residues

Miles Pufall mpufall at cmp.ucsf.edu
Wed Jul 23 00:32:35 PDT 2008

Hello -

I have a couple of structures depicting a complex where the function  
of a loop appears to be important, depending on conditions.  An  
overlay of structures solved under these two conditions shows subtle  
differences, but an examination of omit maps for this loop overlap  
where the model is built, but show quite different extra density,  
suggesting different alternate conformations.  I am trying to make a  
figure of this loop with the 2fofc and omit maps overlaid on this loop  
under the two conditions.  The figure, with a model and two electron  
density maps, can get messy.  I would like to show just the electron  
density surrounding just the loop.  Can you recommend a way to do this  
in chimera?

Thanks -


Miles Pufall
UC San Francisco

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