Tom already answered the question perfectly... I just wanted to mention a related feature: If your structure is in the CASTp database, you can get pre-computed pocket surface areas, volumes, etc. in a very convenient form within Chimera. This also requires a recent version of Chimera. The drawback is that not all structures are in the CASTp database. CASTp fetch is one of the options in File... Fetch by ID, or you can do it with the "open" command, e.g.: open castp:4enl or open castp:2gbp http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/castp.html Elaine On Jun 5, 2008, at 9:37 AM, Tom Goddard wrote:
Hi Miriam,
You can use the Measure and Color Blobs tools to get areas and volumes of connected surface blobs produced by Surfnet. It is found under Tools / Surface&Binding Analysis. You'll need a newer version of Chimera than the production release. Get a daily build or snapshot:
http://www.cgl.ucsf.edu/chimera/alpha-downloads.html
http://www.cgl.ucsf.edu/chimera/download.html#snapshots
Tom