AMBER Archive (2008)

Subject: Re: AMBER: build RNA by nucgen

From: David A. Case (case_at_scripps.edu)
Date: Sun Jan 13 2008 - 11:56:32 CST

On Sun, Jan 13, 2008, ???????? wrote:
>
> I want to build RNA by nucgen.
> The sequence of RNA have 21 residues :
> 5'-GCAACAGUUACUGCGACGUUU-3'
> 3'-UUCGUUGUCAAUGACGCUGCA-5'
>
> The rna_nuc.in:
> NUC 1
> R
> G5 C A A C A G U U A C U G C G A C G U U U3
>
> NUC 2
> R
> A5 C G U C G C A G U A A C U G U U G C U U3
>
> END
> $ARNA

The nucgen format puts only 16 residues per line (fortran format is
'(16(A4,1X)'). So, you will have to split your sequence into several lines.
See p. 282 of the Users' Manual.

..good luck...dac

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