On Thu, Mar 11, 2010 at 11:40 PM, Asfa Ali <asfa.iisc.gmail.com> wrote:
> Hi,
>
> If nucgen produces files with outdated nomenclature, what should we use to
> create DNA duplex so that it works well with leaprc.ff99SB (which uses PDB
> Version 3)?
Use nab (it stands for nucleic acid builder, though it does far more).
Tutorial B1 has been re-done using nab instead of nucgen.
http://ambermd.org/tutorials/basic/tutorial1/section2.htm
>
> Also I want to create a 22 mer single stranded DNA. What should I use?
>
> Thanks...
> Asfa.
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>
All the best,
Jason
--
---------------------------------------
Jason M. Swails
Quantum Theory Project,
University of Florida
Ph.D. Graduate Student
352-392-4032
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Received on Thu Mar 11 2010 - 21:00:06 PST
