Hi Claus, going from the example on the PyMOLWiki, which uses also one structure with ligand and one without:
fetch 1akeA 4akeA, async=0 align 1akeA, 4akeA morph mout, 1akeA, 4akeA extract ligand, 1akeA and organic hide everything show cartoon, mout show sticks, ligand The ligand can't be part of the morphed multi-state object (mout), because there are no target coordinates for it. But if you just extract it to a separate object (with one state), it still can be part of a movie and even move around independently. Try this: mset 1-30 unset movie_auto_store mview store, 1, object=ligand translate [10,0,0], object=ligand mview store, 30, object=ligand (this might move in a silly direction, but you get the idea...) Cheers, Thomas On Oct 11, 2013, at 9:59 AM, "Kuhn, Claus-Dieter" <k...@cshl.edu> wrote: > Hi everyone, > > I am trying to use the new morph command with incentive Pymol 1.6. The 2 > states I am morphing between show an enzyme, which closes its active site > over an incoming small molecule, meaning, the small molecule is only present > in the second structure. > How can I get Pymol to display the small molecule during morphing? > I always receive an error message where Pymol tells me that it couldnt > recognize the small molecule. Is there a way I can load a library into Pymol > as can be easily done in Coot? > > Thanks for any advice, > > Claus > > Cold Spring Harbor Laboratory > Cold Spring Harbor, NY, USA ------------------------------------------------------------------------------ October Webinars: Code for Performance Free Intel webinars can help you accelerate application performance. Explore tips for MPI, OpenMP, advanced profiling, and more. Get the most from the latest Intel processors and coprocessors. See abstracts and register > http://pubads.g.doubleclick.net/gampad/clk?id=60134071&iu=/4140/ostg.clktrk _______________________________________________ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
