I am having trouble with the syntax. Is there a way you could provide me with an example input file or example input script I could modify?
thanks,
Charlie
On Aug 3, 2011, at 6:27 AM, David A Case wrote:
> 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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--
Charles A. Johnson
Graduate Student
Department of Chemistry
Saint Louis University
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Received on Wed Aug 03 2011 - 07:00:03 PDT
