For those interested, I think I'll go for Chimera and its support for
.bild files.
And that will be the end of this not so much xtal-related topic. ;)
Sorry for the noise.
Regards,
F.
On 10/29/2012 09:47 AM, Francois Berenger wrote:
> On 10/27/2012 05:32 AM, Pete Meyer wrote:
>> Just out of curiosity, why use PDB format instead of converting PDB into
>> a format readable by a more general 3d graphics program and combining
>> with your cube/sphere/line segment there?
>
> I want to interact with the scene.
> Rotate, view, zoom, change protein representation, etc.
> So, if I go for some pymol-supported format,
> I will do all my visual inspection in pymol.
>
>> Pete
>>
>> Francois Berenger wrote:
>>> Hello,
>>>
>>> For some new project, I'd like to be able to generate things
>>> and store them in PDB format.
>>>
>>> For example, a triangle, a line segment, a square,
>>> a cube, a sphere, an arrow, etc.
>>> Being able to change the color and "line width" would be nice.
>>>
>>> Is there some official recommended way of doing this?
>>>
>>> Is there some software able to read and display such
>>> graphical annotations of PDB files?
>>> I'll also need the format description in that case.
>>>
>>> I want to be able to process a PDB file and store the result
>>> of my processing in the same PDB file as some kind of annotation.
>>>
>>> My current way of doing this is to discretize my objects as H atoms
>>> in some other output PDB file, but that's just a temporary workaround.
>>>
>>> My current search got me this:
>>> http://www.cgl.ucsf.edu/eccc1/
>>> So, maybe there is some support for what I am looking for into
>>> Chimera.
>>>
>>> Thanks a lot for your suggestions,
>>> Francois.
>>
.color white
.dot 0 0 0
.color red
.vector 0 0 0 20 0 0
.dot 20 0 0
.color green
.vector 0 0 0 0 20 0
.dot 0 20 0
.color blue
.vector 0 0 0 0 0 20
.dot 0 0 20
.color 44
.arrow 1 1 1 5 5 5
.arrow 1 1 2 8 6 9
.arrow 1 2 1 10 10 4
.arrow 2 1 1 -2 7 10
.color 22
.polygon 20 0 0 0 20 0 0 0 20
.color 5
.marker 20 20 20
.dr -20 0 0
.v 20 20 20 20 0 20
.dr 0 20 -20
.v 20 20 20 20 20 0
.dr -20 0 20
.dr 20 -20 0
.color 12
.sphere 10 10 10 3
.color 10
.arrow 19 19 19 12 12 12 0.2 1.0
.color 53
.cylinder 14 -5 14 14 0 14 2 open
.sphere 14 -5 14 2
.sphere 14 0 14 2
|