[BiO BB] Save protein structure image as an adobe SVG format file

[Lijo]

have you tried with VMD?
lijo

On Tue, Nov 25, 2008 at 7:47 PM, Mike Marchywka <marchywka at hotmail.com>wrote:

>
>
>
>
>
>
> > From: boris.steipe at utoronto.ca
> > Date: Mon, 24 Nov 2008 21:15:03 -0500
> > To: bbb at bioinformatics.org
> > 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: shreyasee.pradhan at gmail.com> To:
> >> bbb at bioinformatics.org> 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>> BBB at bioinformatics.org>> http://www.bioinformatics.org/
> >> mailman/listinfo/bbb>>>>>> --> Thanks,> Shreyasee>
> >> _______________________________________________> BBB mailing list>
> >> BBB at bioinformatics.org> 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
> >> BBB at bioinformatics.org
> >> http://www.bioinformatics.org/mailman/listinfo/bbb
> >
> >
> > _______________________________________________
> > BBB mailing list
> > BBB at bioinformatics.org
> > 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
> BBB at bioinformatics.org
> http://www.bioinformatics.org/mailman/listinfo/bbb
>



-- 
Centre for Bioinformatics,
University of Kerala, India.
+91 9446515705(res)