Dear Yuan,
the MUSCLE program can do that for you. It is capable of doing
profile-profile and profile-sequence alignments.
http://www.drive5.com/muscle/muscle_userguide3.8.html#_Toc260497021
Section 2.10 of the manual should be what you want.
Cheers,
Thomas
On Mon, May 31, 2010 at 01:46, Tim Gruene <[log in to unmask]> wrote:
> Dear Yuan SHANG,
>
> you can use Jalview do create and edit an alignment with your sequence.
> Jalview is available at http://www.jalview.org/, and I quite liked it when I
> worked with it.
>
> Tim
>
>
> On Mon, May 31, 2010 at 04:29:48PM +0800, 商元 wrote:
>> Hello, everyone,
>> I've a protein sequence of known domain. Based on structure alignment,
>> I've got a alignment of those with known structures. Then how to add my
>> sequence to the alignment?Any suggestions?
>> Regards,
>> Yuan SHANG
>
> --
> --
> Tim Gruene
> Institut fuer anorganische Chemie
> Tammannstr. 4
> D-37077 Goettingen
>
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