Re: [AMBER] how to cut phosphodiester bond

From: case <>
Date: Tue, 8 Jun 2010 14:33:12 -0400

On Tue, Jun 08, 2010, Sangita Kachhap wrote:

> deleteBond .R<DC 4>.A<O3' 9> .R<DC 5>.A<P 1>

This is nowhere near the correct syntax. Atoms must be defined as
unitname.residuenumber.atomname, with no spaces. You command above is
split on white space, and looks to leap like you have six arguments, not two:

> deleteBond: Improper number of arguments!

See section 3.4.9 of the Users' Manual for an example of the proper syntax.


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Received on Tue Jun 08 2010 - 12:00:03 PDT
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