Hi Phenix users,

since I had to answer this very same question off-list three times in past 48 hours, I thought I post this for future reference...

Yes, thanks Billy there is a GUI for phenix.real_space_refine (tool to refine atomic models against maps, such as cryo-EM maps)! To give it a try, you need:

1) Get the latest nightly build, dev-2427 for instance:

http://phenix-online.org/download/nightly_builds.cgi

2) Enable alpha-test programs in Phenix GUI. To do this:

  -- start Phenix GUI;

  -- go to Preferences and tick "Enable alpha-test programs and features" box;

  -- restart the GUI (close down, then start again);

  -- phenix.real_space_refine will be available in Refinement section on the right (Real-space refinement [alpha]).

Note, it has a very handy feature to see/explore/edit secondary-structure restraints graphically.

Also note that this is alpha-test version meaning that glitches are not unexpected! However your feedback will help to improve it, so please let us know should you encounter problems, have suggestions or found bug(s)!

All the best,

Pavel