Dear Amber users
I have single stranded Guanine rich DNA sequence forms a G-guadruplex.
Sequence : eg. AGXXXGXXXXGXXXXGXXX
G6====G2
|| ||
|| ||
|| ||
G10===G16
I have to used hydrogen bonding restraints (H22-N7, H1-O6) in simulated
annealing. As per my RST file I found the correct bases in the g-tetrad,
but I lost the planarity of the tetrad.
So is there is a way to impose planarity between Guanine base pairs, i.e 4
guanine in one plan.??
I would highly appreciate if any one provides suggestions...
with many thanks
Vince
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Received on Wed Oct 28 2015 - 09:30:03 PDT
