AMBER Archive (2004)

Subject: AMBER: units

From: Gustavo Pierdominici Sottile (
Date: Wed Aug 11 2004 - 10:03:38 CDT

Hi, I am trying to obtain parameters for a non-standar aminoacid. For bond
stretching, I have already done an energy scan with Gaussian using different
values for the distance. With this ab initio energy plot I can calculate k.
The potential energy for bonds is : k (x-x)**2.
The question is: are the units of this k Kcal/A**2?
are those for bending Kcal/rad**2?
This question is because when I try to obtain k for a bendind C1-N-C2 , the
result is 157 Kcal/rad**2 . This number is higher respect to other
similar bendings and this make me think I am doing something wrong.

pd : C1 is sp2, N is sp2, and C2 is sp3
Thanking in advance

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