You might also be interested in the supercell
http://www.pymolwiki.org/index.php/Supercell pymol script, which
generates all chains in the unit cell as opposed to within some radius of
the asymmetric unit.
-Spencer
On Fri, May 22, 2015 at 2:45 PM, Roger Rowlett rrowl...@colgate.edu wrote:
If
Just wondering if there is an easy way to generate symmetry-related chains,
necessary for instance to join protein chains into the biologically relevant
multimers.
What I do now is look up the correct symmetry and translation operator in COOT
or PYMOL and input that in PDBSET, but there may be
Hi Mark,
If the structure has been deposited in the PDB you can download the
biological assembly - even works for viruses, cheers, Matt.
On 22/05/2015 14:24, Mark J van Raaij wrote:
Just wondering if there is an easy way to generate symmetry-related chains,
necessary for instance to join
If you mean generation of pdb coordinates of specific symmetry chains (not
just viewing) then you can do this with the symexp command in pymol. Select
the desired symmetry partners and save as pdb. You may want to edit
duplicate chain id labels in coot or a text editor.
Roger Rowlett
On May 22,
It seems the easiest way is to Save Symmetry Coordinates in COOT and then
assemble the desired chains in a text editor.
Extensions - Modelling - Symm Shift Reference Chain Here.
is present if you build COOT yourself, but is not in the pre-built releases
(for now).
Mark J van Raaij
Dpto de
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Hash: SHA1
Hello Mark,
you can 'File - Save Symmetry Coordinates' and reload the PDB file.
In my Coot 0.8.2-pre, revision 5628, Extensions - Modelling - Symm
Shift Reference Chain Here is available works.
Cheers,
Tim
On 05/22/2015 02:24 PM, Mark J van Raaij
: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Mark J
van Raaij
Sent: Friday, May 22, 2015 10:09 AM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] Easy way to generate symmetry-related protein chains?
(summary)
It seems the easiest way is to Save Symmetry Coordinates in COOT
