[BiO BB] Newbie question.

[drjohn08318 at yahoo.com]

Hi:

Why not express the protein in E. coli, then carry out EMSA usong the recombinant protein to locate the binding sites on the DNA.

John
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-----Original Message-----
From: "Donnie Darko" <rabidstrikes at googlemail.com>

Date: Sun, 6 Jan 2008 14:57:00 
To:bbb at bioinformatics.org
Subject: [BiO BB] Newbie question.


Hi folks,

Suppose I have a novel gene whose product is a DNA binding protein, how
would I go about locating potential binding sites where this protein could
bind? I'm only interested in finding sites for this specific protein and not
a general scan of tfbs.

I've extracted upstream sequences of genes that I'm interested in but I
can't think of a way forward.

Cheers and belated happy new year :-P
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