Hi Justin, could you fetch just the monomer, mutate it and then construct the assembly with http://pymolwiki.org/index.php/BiologicalUnit/Quat ?
Cheers, Thomas On 01/10/2012 08:43 AM, Justin Bailey wrote: > Hello > > I have been working with the pdb file 2C0W. It is a filamentous phage > portion composed of 55 alpha helices, each within their own state. > > I am running into a few problems: > > 1) I'm wanting to add 4 amino acids to the middle of the alpha helix. > I've been practicing my building skills by adding 4 amino acids to the > end alpha helix first. This is where I run into problems - the amino > acids I add to one helix are duplicated to the rest of the 54 helixes in > the other states. When I go to Movies->Show all States, the amino acids > of the other 54 states are all contorted, when I'm looking to have the > alpha helices line up properly like they do in the original file. > > 2) Using the mutagenesis wizard to do a point mutation places the > replacement amino acid way far away from the original amino acid. If I > split the states first, then the mutagenesis works fine, although I'd > rather not do this mutation 55 times. > > Eventually what I want to do is add carbohydrates to these alpha > helices, without having to add them manually to all 55 states. This > goal is looking grim though if I can't get even add or mutate in an > amino acid. I'd rather not split all the states and modify them > individually. > > Maybe I need more knowledge on what is going on when I modify states? > Anyone know to accomplish what I'm setting out to do? > > Justin -- Thomas Holder MPI for Developmental Biology Spemannstr. 35 D-72076 Tübingen ------------------------------------------------------------------------------ Write once. Port to many. Get the SDK and tools to simplify cross-platform app development. Create new or port existing apps to sell to consumers worldwide. Explore the Intel AppUpSM program developer opportunity. appdeveloper.intel.com/join http://p.sf.net/sfu/intel-appdev _______________________________________________ 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
