I think super does not handle nucleic acid sequences well. super ec-5s, hm-5s, seq=-1
works. I'll leave it to someone else to say what that does. I just noted that align works, super doesn't, guessed it had to do with sequence and noted that for align, the default value of seq was -1 and for super, the default value was 0. -David On Fri, Jan 13, 2012 at 7:44 AM, QT <rdirect...@gmail.com> wrote: > Dear all, > > I'm having a tough time using the super command correctly. I want to > superimpose two 5S structures. > > In pymol, I'll do the following > > load 2awb.pdb > load 3cc2.pdb > > create ec-5s, 2awb and chain a > create hm-5s, 3cc2 and chain 9 > > If I issue super ec-5s, hm-5s then the cryptic error "ExecutiveAlign: > invalid selections for alignment. would appear." > > Issuing super /ec-5s//a, /hm-5s//9 does not help either. > > What am I missing? align /ec-5s//a, /hm-5s//9 works just fine though... > > Any help from the community would be very appreciated. > > Best, > Quyen > ------------------------------------------------------------------------------ > RSA(R) Conference 2012 > Mar 27 - Feb 2 > Save $400 by Jan. 27 > Register now! > http://p.sf.net/sfu/rsa-sfdev2dev2 > _______________________________________________ > 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 ------------------------------------------------------------------------------ RSA(R) Conference 2012 Mar 27 - Feb 2 Save $400 by Jan. 27 Register now! http://p.sf.net/sfu/rsa-sfdev2dev2 _______________________________________________ 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
