Dear PyMol users!
I want to create chimeric protein (merge the N term of the second
protein to the C term of the first protein) from two initial pdb's.
How I could do this for further processing of that chimeric protein
for MD simulation ?
Thanks for help,
James
By the way I've already tried to make such thing ussing create command
e.g
create test, sele, 1, 1 # (this should produce merged chains in 1 object)
wheere sele is the selection of all atoms from both proteins. In that
case resulted test.pdb consisted of wrong secondary structure. Also
atom
Hi James
Your residue numbers must be unique, and you must do the renumbering
manually. For example, if your two proteins are
obj1: chain A, residues 1-213
obj2: chain A, residues 56-99
then first renumber the residues in obj2 to be after the residues in
obj1:
alter obj2, resi=resi-56+213+1
Hi Daniel,
OS X 10.8 doesn't ship with X11 so PyMOLX11Hybrid shouldn't fully work
out of the box. Certain development tasks have kept me pinned to OS X
10.7.4 but I will soon be upgrading to OS X 10.8. So, I hope to have
this sorted out soon.
In the meantime, maybe this official Apple response
Chris,
Great -- thanks for the update!
Cheers,
-- Jason
On Tue, Aug 14, 2012 at 11:36 AM, Christopher Rife
christopher.r...@dupont.com wrote:
Hi,
After installing X11 as described below, I haven't had any issues (yet...)
with my X11 based programs under 10.8. X11 based PyMol continues to
With my macports pymol, I have a problem exhibited in the video below:
http://youtu.be/9u2GF6f9sTY
I have a monitor rotated 90 degrees. When I launch pymol on it, the
screen visually rotates back to the non-rotated state. If I launch on
my main monitor and drag the program onto the rotated
