Hey :)
I thought there was a post recently about showing secondary structure in
C-alpha only models. I can't find it anymore, but in any case it's
something popping up now and again. For reconstruction of high-resolution
models out of coarse-grained ones, I came up with a very simple algorithm
for
> From: ccp4...@hotmail.com
> To: pymol-users@lists.sourceforge.net
> Date: Fri, 8 Nov 2013 19:53:50 -0600
> Subject: [PyMOL] alignment of metal coordination
>
> Hi,
>
> Is it possible to align two structure based on metal coordination or
> metal-coordinatin
Hi,
I'd say that align would be a good start with a selection like:
align byres protein1 within 5 of metalion1, byres protein2 within 5 of
metalion2
And from there you can see if further refinement is needed. The 5A is
arbitrary :p
Cheers,
Tsjerk
On Sat, Nov 9, 2013 at 1:24 PM, Mike Marchywk
Dear pymol users,
I'm trying to create a movie, using lsqman and pymol, of a molecule of
~1700 residues (HETATMs deleted, no hydrogens, alternative conformations
removed). I created 60 pdb files with lsqman and loaded them (as
different states of the molecule) into pymol. In the default "lines"
Can anyone tell where can I get the default values of van der wall radii
(or other radii) used in pymol, for atoms and combinations of atoms, like
C, N, O, C=O, CH3, ..etc
--
Best regards
Neshatul Haque
PhD, Dpt of Biotechnology
university of hyderabad
Hello List,
is there a way in PML script to apply a specific spectrum to each MODEL (as
define in PDB data file) ?
Thanks in advance,
Jerome
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