[Bioperl-l] question about positioning peptide in a full protein sequence

[Mingwei Min]

Hi Dave,

Sorry for not making it clear. Yes, I just want to get the coordinates
of the post-translational sites out of a protein sequence. And what I
have now is the peptide sequence with marker on the post-translated
residue... what should i do to map them to the whole protein sequence
and get the coordinates? The only way I could come up with is blast.
But it seems to be too complex for this simple job....

Many thanks,

Mingwei


2011/2/20 Dave Messina <David.Messina at sbc.su.se>:
> Hi Mingwei,
> I'm not sure what you mean by "positioning" here. Do you want to get the
> coordinates of the post-translational sites out of a protein sequence
> database record? Or do you want to draw the post-translational sites on a
> picture of the protein sequence? Or something else entirely?
>
> Dave
>
>
>
> On Sat, Feb 19, 2011 at 15:53, Mingwei Min <mm809 at cam.ac.uk> wrote:
>>
>> Hi,
>>
>> I am trying to positioning some post-tranlational modification sites,
>> which is marked in peptides, in a full length protein sequence. Anyone
>> would be kind to tell me the model I could use for this?
>>
>> Many thanks
>>
>> Mingwei
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>
>