[BiO BB] protein merge

[Naveen Joshi]

Hi Rafik

      Hi think you are trying to study the gene fusion event or the
duplication of a specific part of protein due to gene duplication.. Maybe
you can try reading some papers on the phenomenon of gene fusion. try going
for a review paper as they list all the important techniques ans
also software to analyse such instances which people have used throughout
the years ..

On Tue, Mar 16, 2010 at 6:21 AM, Dan Bolser <dan.bolser at gmail.com> wrote:

> Isn't this just sequence (or structure) alignment?
>
> The consensus would then be the merged sequence.
>
> You should be able to find lots of alignment tools out there.
>
>
>
> On 15 March 2010 15:57, Rafik Ouerchefani <rafik at ubuntu.com> wrote:
> >
> > Hello,
> >
> > I'm looking for a software that can merge two proteins with a shared
> domain
> > (given .pdb files).
> > With sequences it would be like this :
> >
> > seq 1 :  MSARIATRRRDKKARRKLQ*ELGATRLVVHRT*
> > seq 2 :  *ELGATRLVVHRT*PRHIYAPNGSEVLVQVIAA
> > result : MSARIATRRRDKKARRKLQ*ELGATRLVVHRT*PRHIYAPNGSEVLVQVIAA
> >
> > These two sequences have a common sequence ELGATRLVVHRT (end of the first
> > and beginning of the second). It's easy with sequences but I have to do
> it
> > with 3D structures. I have the 3D structures of both sequences 1 and 2.
> >
> > Thanks,
> >
> > - Rafik
> > _______________________________________________
> > BBB mailing list
> > BBB at bioinformatics.org
> > http://www.bioinformatics.org/mailman/listinfo/bbb
>
> _______________________________________________
> BBB mailing list
> BBB at bioinformatics.org
> http://www.bioinformatics.org/mailman/listinfo/bbb
>



-- 
Regards,

Naveen Joshi
Undergraduate Intern,
Computational Evolution Group,
University of Auckland,
New Zealand
00642102249099