Re: [ccp4bb] 3D structure based alignment

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CCP4bb <-- 2008 <-- March 2008 <-- 28 March 2008

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Subject: Re: 3D structure based alignment
From: Gerrit Langer gerrit {- at -} EMBL-HAMBURG {- dot -} DE
Date: 2008-03-28

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From: James Holton JMHolton {- at -} LBL {- dot -} GOV
Date: 2008-03-28

Subject: Re: 3D structure based alignment
From: junfeng liu jliu {- at -} NIMR {- dot -} MRC {- dot -} AC {- dot -} UK
Date: 2008-03-28

Hi,
You can use Chimera to do the work .
Good Luck!
liu
Tânia Oliveira wrote:
>
> Hello,
>
> I´m having a problem that I would like to know if someone could help me.
>
> I want to do a 3D structure based alignment of my protein with another
> one. The problem is that my protein has 2 domains, and the structure
> that I want to superimpose just have one. I can do the structure
> superimposition by hand, but I´m not being able to do the sequence
> alignment based on the 3D structure, because the program that I´m
> using (SSM) starts to superimpose the sequence of my second domain in
> the beginning of the sequence of my reference model (exactly the same
> thing that it does with the sequence of the first domain).
>
> Do you know if there is any program where I can do this.
>
> Thanks in advance,
>
>
>
>
>
> *Tânia Oliveira*, /PhD Student/
>
> *Membrane Protein Crystallography and Microbial Biochemistry
> Laboratory - ITQB-UNL*
>
>
>

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CCP4bb <-- 2008 <-- March 2008 <-- 28 March 2008

Previous message:
Subject: Re: 3D structure based alignment
From: Gerrit Langer gerrit {- at -} EMBL-HAMBURG {- dot -} DE
Date: 2008-03-28

Next message:
Subject: Re: MolRep of coiled coils
From: James Holton JMHolton {- at -} LBL {- dot -} GOV
Date: 2008-03-28