AMBER Archive (2003)

Subject: Re: AMBER: saveamberprep in xLeap

From: David A. Case (case_at_scripps.edu)
Date: Fri Aug 08 2003 - 11:38:34 CDT

On Fri, Aug 08, 2003, Mi-Kyung Seo wrote:
>
> I build disacchride (two galactose) in xLeap and Unit contains two residues
> when I use "desc" command.
> I save it in prep format using saveamberprep command but it says the
> following message.
>
> >saveamberprep unit myunit.prep
>
> saving prep, residue UNK
> UNK: connect0 not defined
> UNK: connect1 not defined
> saving prep, residue UNK
> UNK: connect0 not defined
> UNK: connect1 not defined
> -- Remember to delete unwanted IMPROPER terms!

As far as I know, it is not required to have "connect" atoms defined; is the
above just a warning or a fatal error? What happens if you save to off
format (saveOff) instead?

..good luck...dac 

-- 

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David A. Case                     |  e-mail:      case_at_scripps.edu
Dept. of Molecular Biology, TPC15 |  fax:          +1-858-784-8896
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