Dear All,<div><br></div><div>       Recently I am working on a protein-DNA complex, and from running agarose gel, there is a weak delayed band after the band of pure DNA which </div><div>indicates some DNA has bind to the protein though the binding efficiency is low. Then I tried to optimize the condition to increase the binding, but  it</div>
<div>did not work since the intensity of the delayed band didnot grow. The condition I used is list below:</div><div>1. the concentration of protein is about 1.5mg/ml, buffer in Tris-Cl, PH 8 and NaCl.</div><div>2. the running buffer for agarose gel is 0.5x TBE, PH 8.3.   </div>
<div>3. different ratio of protein: DNA has tried, from 2:1 to 1:2.</div><div>4. different concentration of NaCl, MgCl2 and ATP in reaction system have been added, but no significant change.</div><div><br></div><div>I wonder if there is any way to increase the binding efficiency? Is it possible to set up crystal plates in this situation, with protein and complex together?</div>
<div>Any suggestion would be appreciated!</div><div><br></div><div>Best</div><div>Yang </div>