have you tried with VMD? lijo On Tue, Nov 25, 2008 at 7:47 PM, Mike Marchywka <[EMAIL PROTECTED]>wrote:
> > > > > > > > From: [EMAIL PROTECTED] > > Date: Mon, 24 Nov 2008 21:15:03 -0500 > > To: [email protected] > > Subject: Re: [BiO BB] Save protein structure image as an adobe SVG format > file > > > > Meh. > > Simple Z-sorting is not intersecting spheres. > > If it's any non-trivial vector graphic representation you are trying > > to do, you might consider the following workflow: > > 3D-viewer -> View Matrix -> Molscript -> PS -> ps2svg > > there is something called bkchem, > > > http://en.wikipedia.org/wiki/Wikipedia_talk:WikiProject_Chemistry/Structure_drawing > > and if you look at discussions the viewers don't obviously have svg output > options. > > Certainly if you can't find direct svg output, conversion from another > model-preserving > output format would be great. But, I wouldn't dismiss the script approach > immediately > depending on your ultimate goals. A scriptable viewer could generate many > views but you > could also write a script without the viewer. > > Spheres aren't that hard for z-sorting, > > > http://en.wikipedia.org/wiki/Bounding_volume > > > > > > > > > > > > > > > B. > > > > > > > > > > On 24-Nov-08, at 7:23 PM, Mike Marchywka wrote: > > > >> > >> I guess the real question is, " what are you trying to do?" You could > >> probably write a perl script to do this. The pdb is ascii, you just > >> need to project > >> 3D onto 2D and get some atom colors and radii. SVG AFAIK is all ascii > >> XML which is easy to generate from a script. > >> If you take all the atoms, project, sort on Z ( distance from viewer), > >> and generat XML that would probably give you what you need. > >> http://www.w3.org/Graphics/SVG/ > >> > >> the code to draw circles is pretty simple, > >> http://www.w3.org/TR/SVG11/shapes.html> Date: Tue, 25 Nov 2008 > >> 07:36:35 +0800> From: [EMAIL PROTECTED]> To: > >> [email protected]> Subject: Re: [BiO BB] Save protein > >> structure image as an adobe SVG format file>> Hi,>> For viewing > >> PDB files you can use Swiss PDB viewer software. Its free !!!>>> > >> On Fri, Nov 21, 2008 at 11:14 PM, Xiaowei Jiang > >> wrote:>>> Hi fellows,>>>> Does anyone > >> know a PDB viewer software or a way, in which I can save image>> > >> directly as an adobe SVG format file?>>>> Thanks in advance!!>>> > >>> Cheers,>> Xiaowei>>>>>>>>>> > >> _______________________________________________>> BBB mailing > >> list>> [email protected]>> http://www.bioinformatics.org/ > >> mailman/listinfo/bbb>>>>>> --> Thanks,> Shreyasee> > >> _______________________________________________> BBB mailing list> > >> [email protected]> http://www.bioinformatics.org/mailman/ > >> listinfo/bbb > >> _________________________________________________________________ > >> Proud to be a PC? Show the world. Download the "I'm a PC" Messenger > >> themepack now. > >> hthttp://clk.atdmt.com/MRT/go/119642558/direct/01/ > >> _______________________________________________ > >> BBB mailing list > >> [email protected] > >> http://www.bioinformatics.org/mailman/listinfo/bbb > > > > > > _______________________________________________ > > BBB mailing list > > [email protected] > > http://www.bioinformatics.org/mailman/listinfo/bbb > _________________________________________________________________ > Get more done, have more fun, and stay more connected with Windows Mobile(R). > http://clk.atdmt.com/MRT/go/119642556/direct/01/ > _______________________________________________ > BBB mailing list > [email protected] > http://www.bioinformatics.org/mailman/listinfo/bbb > -- Centre for Bioinformatics, University of Kerala, India. +91 9446515705(res) _______________________________________________ BBB mailing list [email protected] http://www.bioinformatics.org/mailman/listinfo/bbb
