AMBER Archive (2005)

Subject: Re: AMBER: loading DNA-RNA hybrid in xleap

From: David A. Case (case_at_scripps.edu)
Date: Sat Jul 02 2005 - 12:30:58 CDT

On Sat, Jul 02, 2005, cbala_at_igib.res.in wrote:
>
> good day. i tried to load a DNA-RNA hybrid in xleap.

You have to name the residues explicitly in the pdb file, e.g. as

DA5 DC DG ... DG3 RC5 ... RC RG RU3

Otherwise, leap doesn't have any way of knowing which parts are RNA and
which parts are DNA.

...dac

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