Previously you were super quick and helping when answering my ‘tunnel’ question, so I thought I could try another question for chimeraX.

I have a protein which via Caver I have found a tunnel which runs through. This tunnel has been exported as a pdb and using your help and python, the tunnel now changes diameter perfectly as it weaves through the structure.

I had this idea to colour the tunnel according its surrounding residues and their hydrophobicity. 

So in chimeraX I can colour my model ‘hydrophobically’ from cyan to gold.

Then I wanted to 'zone’ these colours into my tunnel pdb. But when I use color zone #2 near #1 distance 20 for example, the tunnel is coloured in red and blue patches? Even though the model is cyan and gold.

Is there a way to achieve my goal please?

Best wishes,

Kelly