Hej Henrique, not an inorganic chemist here, but some suggestions anyway:
Metallic centers should be displayable as spheres using the *show*, or *show_as spheres* commands. The radius can be altered using: *set sphere_scale, value, selection* The bonds are more problematic. Pymol has some options for editing bonds, but a display as dotted line doesn't exist as such to my knowledge (maybe something to expand on in future PyMOL versions?). What you could try is to use distance objects instead, but depending on the complexity of the model this may be applicable, or not. Note that you may have to unbond the metallic center to remove any existing PyMOL bonds for the display. http://pymolwiki.org/index.php/Distance The distance objects can be colored and there are several settings related to dashes, e.g. radius, shapes, gaps etc. etc (use the settings-->edit all--> and filter by "dash"). Hope this may help, otherwise there may be other approaches, Cheers, Andreas On Thu, Nov 19, 2015 at 3:54 PM, Henrique C. S. Junior < henrique...@gmail.com> wrote: > Dear Pymol users, > As an inorganic chemist, to represent metallic centers and ligands in a > comprehensive way is very important. I've tried to select my metallic > centers and the atoms bonded directly to them, change this selection to > ball and stick and keep all the rest as wireframe. Some bonds changed to > sticks, some others not (and they are not changing, even if I try again). > What I want to do is this: > * Represent my metallic centers as spheres (maybe tweaking the radius a > little) > * Change bonds directly connected to my metallic centers to dashes or dots > (and change the colors of this dashes/dots if possible). > Any help is much appreciated. > > -- > *Henrique C. S. Junior* > Químico Industrial - UFRRJ > Mestrando em Química Inorgânica - UFRRJ > Centro de Processamento de Dados - PMP > > > ------------------------------------------------------------------------------ > > _______________________________________________ > PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net >
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