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
------------------------------------------------------------------------------
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
