[gmx-users] .pdb file for DNA

Alexander Bujotzek bujotzek at zib.de
Mon Mar 7 10:07:37 CET 2011

Not really that Gromacs-related, but:
In Ambertools, there's a program called nab(?) a.k.a. nucleic acid builder
which performs that task very well.
Sequence in, pdb-structure out, also for DNA single strands and RNA.



> Dear All,
> I want to simulate interaction between single strand dna and cnt. I tried
> to use
> Biomer (from case group webpage), but it's not working. When I try to open
> B.html in my browser, I get a blank page. Could anyone please tell me if
> there
> is another way to generate .pbd file for dna?
> Thanks,
> Majid
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