Hi Joćo

Thanks! it worked fine!

>>Just make sure not to have 0.0 bfactors in there!

true :) I normalized them by adding 1 to all.

Cheers

Afonso



On Thu, Jul 4, 2013 at 1:13 PM, Joćo Rodrigues <anaryin@gmail.com> wrote:
Hi Afonso,

PyMOL allows for Python scripting so in principle you could do something like:

import math
alter structure, b=math.log(b, 10)

Just make sure not to have 0.0 bfactors in there!

Cheers,

Joćo


2013/7/4 Afonso Duarte <afonsomduarte@gmail.com>

Dear All,


I have a pdb file composed by several chains where the b-factor column was replaced by a physical property of the proteins. I am now trying to color according to b-factor and to obtain a better representation of the properties described. i.e. I am interested in calculating the log of the b-factor and place that value in the b-factor column.

I tried to export this column form the pdb, process it and then import it back, but due to the presence of different chains the b-factors got messed up.

Would it be possible to do this kind of math  operation directly in Pymol? 


Best


Afonso 


------------------------------------------------------------------------------
This SF.net email is sponsored by Windows:

Build for Windows Store.

http://p.sf.net/sfu/windows-dev2dev
_______________________________________________
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