[gmx-users] amino acid color

[Erik Marklund]

Hi,

If you put the hydrophobicity in the b-factor column of a pdb file then pymol can use it for coloring.

Best,

Erik

14 nov 2012 kl. 14.14 skrev tarak karmakar:

> Dear All,
> 
> In the active site cavity there are hydrophobic and hydrophilic amino
> acid residues. Now I want to provide color according to the
> hydrophobicity of the amino acids present thereby, suppose the color
> will start from BLUE (for the most hydrophobic) to RED ( most
> hydrophilic). Could anyone suggest me any software to make this type
> of picture ?
> Thanks
> 
> -- 
> Tarak
> -- 
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-----------------------------------------------
Erik Marklund, PhD
Dept. of Cell and Molecular Biology, Uppsala University.
Husargatan 3, Box 596,    75124 Uppsala, Sweden
phone:    +46 18 471 6688        fax: +46 18 511 755
erikm at xray.bmc.uu.se
http://www2.icm.uu.se/molbio/elflab/index.html