pymol-users

[PyMOL] Retriving my PDB file

[Bishwa S. <bp...@ut...>]

Hi,

I altered the secondary structure of the protein using alter command. I have the PDB file with the correct secondary structure and their appropriate length. But how can I save this information into my PDB coordinate file such that when I reopen the file I do not have to repeat the command again?

Thank you in advance

Bishwa

Re: [PyMOL] Retriving my PDB file

[Thomas H. <sp...@us...>]

Hi Bishwa,

PyMOL lacks the feature to save secondary structure to PDB files. But 
you could install "psico" which is a add-on to PyMOL. It adds a 
"save_pdb" command (or overloads the save command if you like) which 
does write PDB files including secondary structure header.

http://pymolwiki.org/index.php/Psico

Hope that helps.

Cheers,
   Thomas

On 04/23/2012 12:07 AM, Bishwa Subedi wrote:
> Hi,
>
> I altered the secondary structure of the protein using alter command.
> I have the PDB file with the correct secondary structure and their
> appropriate length. But how can I save this information into my PDB
> coordinate file such that when I reopen the file I do not have to
> repeat the command again?
>
> Thank you in advance
>
> Bishwa

-- 
Thomas Holder
MPI for Developmental Biology
Spemannstr. 35
D-72076 Tübingen