Re: [PyMOL] [pymol] Assembly
Dear Matthias, use: set assembly, 1 set all_states, 1 fetch 7epp GUI "generate symmetry mates" does not work as the unit cell is defined as: CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 resulting in symmetry mates shifted by 1.0 Ang. in x y z. We need a "generate biological assembly" command. Best, Norbert Am 22.09.2024 um 12:02 schrieb Matthias Mayer: To whom it may concern, I wanted to load a cryoEM structure of a virus-like particle (7epp.pdb1) into pymol 2.5.0. But instead of showing all the subunits, when I open the file, it makes a movie out of it with individual framesIs there a way to prevent this and just show the entire assembly? Also when I used the single file 7epp.cif and used the command generate symmetry mates, it makes weird things, overlaying all the structures with only a small translational offset and not rotation. Thanks for any suggestions. Best regards Matthias ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/[email protected] Unsubscribe: https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe
Re: [PyMOL] [pymol] Assembly
Hi Matthias, try dragging the pdb file into the center of the Pymol Viewing screen, thanks:) On Sun, Sep 22, 2024 at 12:21 PM Matthias Mayer < [email protected]> wrote: > To whom it may concern, > > I wanted to load a cryoEM structure of a virus-like particle (7epp.pdb1) > into pymol 2.5.0. But instead of showing all the subunits, when I open > the file, it makes a movie out of it with individual framesIs there a > way to prevent this and just show the entire assembly? > > Also when I used the single file 7epp.cif and used the command generate > symmetry mates, it makes weird things, overlaying all the structures > with only a small translational offset and not rotation. > > Thanks for any suggestions. > > Best regards > > Matthias > > -- > = > Prof. Dr. Matthias P. Mayer, SFCSSI > Center for Molecular Biology of Heidelberg University (ZMBH) > Im Neuenheimer Feld 345, room 161 > D-69120 Heidelberg > Germany > > Tel. +49 6221 546829 > > > > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/[email protected] > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe > ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/[email protected] Unsubscribe: https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe
[PyMOL] [pymol] Assembly
To whom it may concern, I wanted to load a cryoEM structure of a virus-like particle (7epp.pdb1) into pymol 2.5.0. But instead of showing all the subunits, when I open the file, it makes a movie out of it with individual framesIs there a way to prevent this and just show the entire assembly? Also when I used the single file 7epp.cif and used the command generate symmetry mates, it makes weird things, overlaying all the structures with only a small translational offset and not rotation. Thanks for any suggestions. Best regards Matthias -- = Prof. Dr. Matthias P. Mayer, SFCSSI Center for Molecular Biology of Heidelberg University (ZMBH) Im Neuenheimer Feld 345, room 161 D-69120 Heidelberg Germany Tel. +49 6221 546829 ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/[email protected] Unsubscribe: https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe
