Hi everyone,
I'm new to nab and have been trying to build a circular DNA molecule.
To do this, I was following the nab tutorial, page 122
https://citeseerx.ist.psu.edu/viewdoc/download?doi=10.1.1.460.7407&rep=rep1&type=pdf
The first thing I observed is that I need to fix the wc_helix command
by either adding
m1 = wc_helix(sbase, "", "dna", abase, "","dna", 2.25, -4.96, 0.0, 0.0,"" );
or
m1 = wc_helix(sbase, "", "dna", abase, "","dna", 2.25, -4.96, 0.0,
0.0,"s5a5s3a3" );
(I'm not sure for this particular example what is morer proper).
This allows for proper compiling. Then, I run into the same problem from
http://archive.ambermd.org/201202/0343.html
that is, I get an error message "Atom O3’ not in residue DA5." This, I
don't know how to solve.
Any suggestions?
Thanks,
Sebastian
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Received on Sun Dec 27 2020 - 08:00:02 PST
