Target sequences of DNA binding proteins by random selection

[Sasha Chittka]

Hello,

I am trying to determine the consensus DNA binding sequence for a 
protein i have cloned (it is a DNA binding protein) by using a random 
selection and PCR approach.  I was wondering if anyone has experience 
doing this and some helpful hints or extended protocols on the 
procedure.  What is the appropriate scale of the oligonucleotide 
synthesis and the method of purification ?  I will be using GST or 
MBP fusion proteins in this screen for in vitro binding of random 
oligonucleotides.

Any information would be of help.

Thanks a lot in advance and best regards,

Sasha

Alexandra Chittka, PhD
MRC Centre for Developmenta Neurobiology
4th Floor New Hunt's House
King's College London - Guy's Campus
London Bridge
London SE1 1UL

Tel: +44-(0)207-848-6532
Fax: +44-(0)207-848-6550 or 6798
e-mail:  sasha.chittka at kcl.ac.uk