I've created a membrane protein system which is shown in vmdscene.png, but I want to produce a publication quality image of such system using VMD as shown in image popc.png. I want to increase the brightness of protein while decreasing the brightness of other molecules so that my membrane protein will be in forefront in VMD. I don't know how to do that in VMD. I would be very grateful for any suggestion to give limelight to my membrane protein compared to other molecules and any suggestions for graphical representation for such membrane protein system will be more than helpful.
1 - Open the Materials editor (menu option Graphics > Materials)
2 - Create a New Material (button Create New). My is named Material23.
3 - Set a low Diffuse value for your new material (in my example, 0.23)
4 - Open the Representations window (menu option Graphics > Representations)
5 - Select the molecules you want to decrease brightness of (in my example, 1fqy.pdb)
6 - Set your newly created material (in my case, Material23) as the Material for the selected molecule.
7 - Your molecules (in my case, the ribbon) will be less bright.
Please see screenshot for details. I hope that helps.
Thank you Francisco. This is what I have got till now and I am still working on it.
Maybe you shouldn't decrease the Diffuse level: it is becoming hard to make sense of the background protein's structures). Have you tried using a strong, saturated color for the foreground particle and a soft, pale color for the ones in the background?
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