Hi James, > Recently I've opened such topic but I didnt obtain answer on this > question so I try to paraphrase my task. Also I want to specify this > topic on questions lincked with the processing of pdbs. > > 1) I need to remove some elements fron my structure described as the > individual residue and place another element of the same size on the > place of the first element. > > In particular I have two different peptides both of wich have small cap > groups on C and N termi. ( attached) > > I need to remove all caps ( two caps FOR and ETA because there are two > identical chains in that structure) from the 1MAG structure and build > exactly on this place another cap groups wich I'd like to copy from the > second peptide ( KALP).
the "Mutagenesis Wizard" comes in handy for editing caps. However it fails with non-standard amino acis as far as I know. Then you have to do it manually. These commands could be a good start for your task: http://pymolwiki.org/index.php/Remove http://pymolwiki.org/index.php/Fuse > So I'd like to change FOR- > ACE and ETA-> NH2 > twisely for the 1MAG dtructure hm, shouldn't it be the other way round? FOR is N-terminus and ETA is C-terminus? Cheers, Thomas -- Thomas Holder MPI for Developmental Biology Spemannstr. 35 D-72076 Tübingen ------------------------------------------------------------------------------ RSA(R) Conference 2012 Save $700 by Nov 18 Register now http://p.sf.net/sfu/rsa-sfdev2dev1 _______________________________________________ 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
