The exact answer to the question is almost impossible, because DNA docking is somewhat headache as compared to protein.

But i suggest you to look for:

PDB structures with low R-factor and R-free values.

And if you're looking for a DNA docking protocol then i recommend you this recently published paper.

Article DNA minor groove binding of a well known anti-mycobacterial ...

You can use the same template mentioned in paper for docking.

Hope this will help!

Can use DNA docking for antimicrobial agent? In drug design it prefer this type?

The exact answer to the question is almost impossible, because DNA docking is somewhat headache as compared to protein.

But i suggest you to look for:

PDB structures with low R-factor and R-free values.

And if you're looking for a DNA docking protocol then i recommend you this recently published paper.

Article DNA minor groove binding of a well known anti-mycobacterial ...

You can use the same template mentioned in paper for docking.

Hope this will help!

Thank you so much.

SAMEE ULLAH Thank You so much, I was confused for selecting the accurate template. It was really helpful.