Dear Amber users,
I want to calculate the distance between the N1 atom of GUA 61 and the
N3 atom of CYT 72 in the chain GCGATCGA(not the centre of mass). this is the input file *ptraj.in*
trajin prod.mdcrd
distance G3-C6 :61.N1 :72.N3 out G3-C6.list
and I used excell to get the curve of distance vs
time. To my surpriae, in the curve all the distance is
between 2 .6A and 4A in 300kand 400k. But in fact, the distance will beyond 5A
could you help me how to do that .
Many thanks in advance.
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Received on Thu Aug 11 2011 - 01:00:02 PDT
