On Tue, Aug 02, 2011, Charles Johnson wrote:
> I am currently using AMBER 11 and attempting to build an RNA duplex with
> NAB. I have seen a few tutorials for this program, however I am unable
> to figure out how to specify both strands of my RNA duplex. The system
> I am working with has a mismatch in it so just specifying one strand
> will not work.
The wc_helix() routine (see Section 18.1) takes sequences for both strands
as input, so mismatches are certainly allowed. You might also look at the
building routines at
http://3dna.rutgers.edu -- not sure if those allow
for mismatches or not.
....dac
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Received on Wed Aug 03 2011 - 04:30:02 PDT
