AMBER: saveAmberPrep in internal coordinates

From: Xu, Huafeng <>
Date: Wed, 20 Feb 2008 12:02:00 -0500


I've built a tripeptide with a phosphoresidue using leap, and want to
save the parameters to a Amber file. I used

saveAmberPrep tripep

It worked, except that it saved the structure in Cartesian coordinates,
whereas I'd like to have it saved in internal coordinates (z-Matrix), as
in all the default Amber files, so that I can use my scripts to
convert it to my own file format for phosphoresidue template. Does
anyone know how to instruct leap to saveAmberPrep in internal

Thanks very much.

Huafeng Xu
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Received on Sun Feb 24 2008 - 06:07:08 PST
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