Hi,
There is a script available on the pymol wiki called "zero_residues". This
will allow you to easily renumber any AA sequence.
As far as other heteroatoms are concerned you could consider removing them
(remove hetatm), or extract them into a second object.
Another alternative is to simply adjust the coloring command according to
the pdb.
Hope that helps,
Andreas
On Dec 13, 2014 4:41 PM, "Alireza Kashani" <alireza.kashanip...@gmail.com>
wrote:
> Dear All,
>
> I would like to colour different regions of a protein in different colour;
> say region one, amino acid number 1 to 100 and region two amino acid 101 to
> 150; However, when I look into a pdb file using pymol; by displaying the
> residuals, I see the residue number 1, does not correspond to the first
> amino acid; I assume, because of other atoms (metals, ions and etc).
>
> I was wondering if I should filter the pdb file, beforehand to be free
> from these metals, or is there any command that I can put them away and
> make a selection based on set of amino acids ?
>
> I appreciate your help,
>
>
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