Another option: phenix.maps can create any number and almost any kind of X-plor formatted map around selected atoms (and within a certain distance, which is a user-defined parameter). Then all you need is load this map and model into Pymol and - voila - you have what you asked for. This can be done from the command line or GUI.
Pavel. On Fri, Jan 14, 2011 at 8:19 PM, Sean Seaver <[email protected]> wrote: > Hi Michael, > > The carve command displays the radial density of a selected atom. As per > the example, a carve=1.6 would mean that density around a selected atom will > be shown with a 1.6 Angstrom radius. The carve command can prove useful in > figures in which density obscures relevant information. It is important > that if implemented the audience is made aware so as to avoid confusion. > The carve command is not set by default within PyMOL therefore the density > will not be manipulated without user input. Alternatives to PyMOL that > maybe of interest are UCSF Chimera and Discovery Studio Visualize. > > Take Care, > > Sean > > http://store.p212121.com/ >
