AMBER Archive (2003)

Subject: minimization with restraints

From: A. Hungie (hungie01_at_hotmail.com)
Date: Tue May 06 2003 - 07:57:22 CDT

Dear All,

I have a look in a DNA simulation tutorial in Amber homepage. In step 3
(moving DNA), DNA was minimized 6 rounds by decreasing force constant from
25 to 0 kcal/(mol.A**2). As my understanding, this minimization is only bond
length minimization, right? Are bond angle and dihedral angle minimized?
Thank you very much in advance for your kindness response.

Hungie

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