[PyMOL] CA only pdb file

Hi, all, I have a pdb file only contains CA atoms. When I try to show cartoon about this protein, nothing happened. I found I can only show nb_sphere on the screen, is there a way to show cartoon based on those CA only pdb files? The secondary structures have been already defined in the pdb he

[PyMOL] how to use util.rainbow?

Hi, all, I was trying to use a command to do rainbow coloring. After I entered util.rainbow, pymol(0.86) hung up there. I could not find any document or help on how to use util.rainbow. Could someone give me some suggestions? Thanks. Jianghai -- === Jianghai Zhu Bioc

Re: [PyMOL] Surface and SASA

Hi Dr. Warren! I know about MSMS license. Indeed, I'm suggesting an approach similar to what VMD did, i.e., it can link, run and catch results to plot, all that as a option conditioned to one gets or not MSMS installed, separately, in one's machine. Sanner had done and released a

Re: [PyMOL] Surface and SASA

Alan, Last I checked, MSMS was saddled with a number of constraints on its usage and redistribution. Though source code can be obtained under certain conditions, MSMS doesn't meet the minimal "open-source" software requirements that would make it eligible for inclusion into PyMOL. I talked with

Re: [PyMOL] Surface and SASA

Hi List! Dear Dr. Warren, have you consider using MSMS to generate surface in Pymol, as VMD already does? Since MSMS can generate a list too, by using another programs, I could calculate properties to each point in the mesh. So, I wonder, applying a colour method linked to such p

RE: [PyMOL] POVRAY and Smooth Triangles ?

The patch can be found at http://cobra.mih.unibas.ch/dino/pov/index.php3?p=patcho "help povray" unfortunately has a typo in the url, but is otherwise informative. Good luck. Unforunately, this stuff is 1.5 years out of date -- I haven't revisited the triangle situation since then. From what I