Hi, I think the options that Andreas propose are very good for your needs. Nevertheless, if you what to try, another option will be to use PyMOL CGO <http://www.pymolwiki.org/index.php/Category:CGO>
Cheers, Osvaldo. On Fri, Nov 20, 2015 at 4:10 PM, Andreas Warnecke < 4ndreas.warne...@gmail.com> wrote: 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 >> > > > > ------------------------------------------------------------------------------ > > _______________________________________________ > 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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