[PyMOL] Single transparent sphere

2007-04-06 Thread jjv5
Hi, Does anyone know of a good way to create a single transparent sphere of varying size? We've tried using a single atom and changing the vdw, but we are unable to produce a surface of a single atom. CGO objects work but cannot be made transparent. What we'd really like is a transparent CGO sphe

[PyMOL] Surface vertex list

2007-04-17 Thread jjv5
Hello, Is there a way to access the individual vertices of a surface abd there association with atoms? I know it's done under the hood, but can I write some code that say returns a list of surface vertices associated with a particular atom? In the end, I'd like to know if two atoms share a surfa