In the past I have used PyMol pretty successfully to visualize low- resolution x-ray solution scattering results in which each "atom" in a pdb file is actually a large sphere (say 4-6 Angstroms) representing some density. I would use
>alter <molecule name>, vdw = 6.0to set the sphere sizes appropriately, then compute a surface using the "surface" option in the "Show" pulldown of the appropriate object.
Strangely, this seems to have quit working for me. When I select surface, nothing happens, not even an error message. It still works fine for older files I have, so it must be something particular about the geometry of the object I have (it is a rather sparse extended object). Anyone seen this kind of problem?
File is included below:
test2-1.pdb
Description: Binary data
