Renuka,
In this case the 'fit' command is detecting the residues that are common
between your two sequences and fitting those. The operator in question here
is in. You can select atoms from one chain that are in another. For
example,
# load your two proteins p and q, then select the
#
Is it possible to load a pdb file and have pymol skip making bonds?
There's a bunch of undocumented options to load, but I don't think any
of them do what I want. I have a file where there's a bunch of
jumbled atoms and there's no relation between them, just thousands in
the same place and pymol
actually, you can ignore this email, it seems pymol was having issues
because there were a bunch of CONECT records, if I delete those, pymol
actually loads it really fast. Kind of odd behavior, but interesting.
-David
On Thu, Apr 22, 2010 at 2:14 PM, David Hall li...@cowsandmilk.net wrote:
Is
Hi David,
Check out the connect_mode setting:
set connect_mode, 1
# no bonds
fetch 1cll
Cheers,
-- Jason
On Thu, Apr 22, 2010 at 2:14 PM, David Hall li...@cowsandmilk.net wrote:
Is it possible to load a pdb file and have pymol skip making bonds?
There's a bunch of undocumented options to
I started a pymolwiki page for this at
http://www.pymolwiki.org/index.php/Connect_mode so I had something to
benchmark. If someone knows what connect_mode=3 does, please fill it
in. The code in layer2/ObjectMolecule2.c is probably where to start
if you want to take a stab at figuring it out.
Hi Maia,
Just to add to what Jason said:
On Thu, 22 Apr 2010 17:16:41 -0400, Jason Vertrees
jason.vertr...@schrodinger.com wrote:
2. Which plugin allows me to move one structure relative to another. (I
want to do manual docking of one structure into another).
You don't need a plugin to
Thank, Robert, Jason.
Finally I figured this out with your help.
Maia
Robert Campbell wrote:
Hi Maia,
Just to add to what Jason said:
On Thu, 22 Apr 2010 17:16:41 -0400, Jason Vertrees
jason.vertr...@schrodinger.com wrote:
2. Which plugin allows me to move one structure relative to
Dear PyMol developers,
PyMol is an awesome program, but I'm a casual user. Please remove my
email address from your bulletin board.
Thanks
Dave Stout
4-22-10
d...@scripps.edu
--
