Re: [PyMOL] Editing of the pdb structure

[Tsjerk W. <ts...@gm...>]

Hi James,

Pymol adds a TER statement at the end of each continuous piece of the protein.

Cheers,

Tsjerk

2012/3/21 James Starlight <jms...@gm...>:
> Hi Tsjerk,
>
> I'm not quite understood if pymol adds TER enty after residues wich consist
> of missing atoms or in the place with the missing residues  ( e.g in loops
> of GPCRs or other flexible regions) ?
>
> James
>
> 21 марта 2012 г. 10:38 пользователь Tsjerk Wassenaar <ts...@gm...>
> написал:
>
>> Hi James,
>>
>> Broken refers to non-continuity of a chain, i.e. missing residues. Broken
>> does not mean wrong... But for the rest, I admitted to be wrong with my
>> arguments already :p
>>
>> Cheers,
>>
>> Tsjerk
>>
>> On Mar 21, 2012 6:47 AM, "James Starlight" <jms...@gm...> wrote:
>>
>> Hi Tsjerk!
>>
>> It's very strange because I've obtained all same structures with the same
>> TER statements in the body of the pdb file in the case of processing of
>> x-ray structures of GPCRs ( It's different membrane proteins solved by the
>> different lab groups in the different time ). So it's strange that all of
>> those structures were broken!
>>
>> James
>>
>> 20 марта 2012 г. 14:35 пользователь Tsjerk Wassenaar <ts...@gm...>
>> написал:
>>
>> > > Hi James, > > In addition to Thomas' answer... What is _wrong_ about
>> > > the TER > statement? Your ...
>>
>>
>



-- 
Tsjerk A. Wassenaar, Ph.D.

post-doctoral researcher
Molecular Dynamics Group
* Groningen Institute for Biomolecular Research and Biotechnology
* Zernike Institute for Advanced Materials
University of Groningen
The Netherlands