Hi Nikolay, I guess you mean that the viewing angle of the clip plane surface effects the colors on that surface. That happens because light reflections are used to improve the 3-dimensional appearance -- the sense of depth. You can get rid of those light reflections using menu Tools / Lighting and switching the lighting mode from the default two-point lights to "ambient". Another way to do this is with the Chimera command lighting mode ambient Another problem you will notice is that the coloring on the clip surface may have jagged boundaries. To improve this use menu Tools / Depiction / Surface Capping and increase the cap "mesh subdivision factor" from 1 to 10. The coloring is only applied to the vertices of the mesh that defines the "cap" (ie flat surface) that covers the hole made by clipping. This step makes a much denser array of vertices and less jagged coloring. Tom
Hi all,
I was wondering if anyone could help me create an accurate contour map based on surface charge. I've tried rendering my molecule by charge, then using the surface clipping, capping, and the color zone tools. However, the coloring varies based on how I orient the plane. Does anyone know a better and more accurate way to creating a contour map?
Nikolay Rodionov