Re: [PyMOL] sequence conservation alignment onto structure

[humayun s. <hu...@gm...>]

Indeed, both of them (ConSurf, ALINE) worked very well. Although I found
ConSurf to be exact what I asked for, but I was also looking for program
like ALINE which aligns the sequences with secondary structure labelling.

Thanks a lot



On Fri, Jun 4, 2010 at 8:47 PM, Folmer Fredslund <fo...@gm...> wrote:

> Dear Humayun,
>
>
> On 4 June 2010 13:30, humayun scherrif <hu...@gm...> wrote:
> > Dear All,
> > Is there any way of color coding sequence conservation of a protein onto
> > structure by using multiple sequence alignment and structure in pymol ?
> >
>
> It might be possible to do this in PyMOL, but I would strongly advise
> you to have a look at ALINE:
> http://crystal.bcs.uwa.edu.au/px/charlie/software/aline/
>
> Here you can color the alignment and export the colors to a PyMOL script.
>
> This is at least one way to do it.
>
> Best regards,
> Folmer Fredslund
>
>
>
> >
> > Thanks in advance
> >
> > --
> > Best Regards,
> >
> > Humayun Sharif
> > MS student
> > Protein Structure and Function Laboratory
> > Gwangju Institute Of Science & Technology,
> > Gwangju, 500-712, Republic of Korea
> > Tel (Res) :+82-62-718-4176
> > Tel (Lab) : +82-62-970-2549
> > Email: hu...@gm...
> >
> >
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-- 
Best Regards,

Humayun Sharif
Research Assistant
Protein Structure and Function Laboratory
Gwangju Institute Of Science & Technology,
Gwangju, 500-712, Republic of Korea
Tel (Res) :+82-62-718-4176
Tel (Lab) : +82-62-970-2549
Email: hu...@gm...