AMBER Archive (2009)

Subject: Re: [AMBER] No sp2 improper torsion term for NB-CA-CB-CB

• Previous message: Tom Joseph: "Re: [AMBER] problem in QM/MM input file"
• In reply to: qiaoyan: "[AMBER] No sp2 improper torsion term for NB-CA-CB-CB"
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On Tue, Sep 08, 2009, qiaoyan wrote:

> I use tleap to load apdb file into amber, everything is ok, but
> when I check the leap.log file, I found there was warning, my pdb
> file is a RNA,all the nucleotides are canoncial, I don't know
> what's wrong, please help me.
> ** Warning: No sp2 improper torsion term for NB-CA-CB-CB
> atoms are: N7 C6 C5 C4
> ** Warning: No sp2 improper torsion term for N*-CB-CB-NC
> atoms are: N9 C5 C4 N3
> ** Warning: No sp2 improper torsion term for NB-C-CB-CB
> atoms are: N7 C6 C5 C4
> ** Warning: No sp2 improper torsion term for N*-CB-CB-NC
> atoms are: N9 C5 C4 N3

These are just informative messages; there is no error.

...dac

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• Previous message: Tom Joseph: "Re: [AMBER] problem in QM/MM input file"
• In reply to: qiaoyan: "[AMBER] No sp2 improper torsion term for NB-CA-CB-CB"
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