Hi Lisa,
I will second James' suggestion. DNA packing seems really important, and
making the DNA length as X half turns is usually good for packing (X=2, 3,
4 ...).
Another thing you might want to try is Hoogstein base pairing.
Cheers,
Xun
On Wednesday, February 15, 2012, James Stroud wrote:
>
This paper is a favorite:http://www.ncbi.nlm.nih.gov/pubmed/2160019
J Mol Biol. 1990 May 5;213(1):159-66.
Crystallization of Escherichia coli catabolite gene activator protein with its
DNA binding site. The use of modular DNA.
On Feb 15, 2012, at 12:06 AM, LISA wrote:
> Hi all,
>
> I ha
Use 5' overhangs of two and make the DNA 10, 11, 15, 20, 21 25, 26, 30, or 31
bases in length. Count the overhangs in the length.
If you don't know where to start, try 15, 25, and 26 first because they will
make 2(1) screws, which are good for crystals.
James
On Feb 15, 2012, at 1:06 AM, LISA
Lisa, there isn't unfortunately a hard and fast rule for the length of DNA used
in co-crystallisation. It usually is just a case of screening different
lengths, permuting the sequence, and investigating overhangs or gaps in the DNA
duplex. We generally work with oligos between 8 and 21 nts in l
Hi all,
I have a DNA binding protein. I can get crystals when I mix 8-28 nt dsDNA
with my protein. But neither of them has good diffraction. Some biochemical
data said the longer of DNA, the tigher of the binding betwwen DNA and my
protein. The binding is not sequence-specfic. Does anyone have sug
