AMBER Archive (2009)

Subject: [AMBER] query

From: bharat lakhani (
Date: Fri Jul 31 2009 - 02:42:04 CDT

Sir / Madam,

During minimization if i want to fix the secondary structure part
(alpha helix) and move rest of the part is it possible to do it ?
I mean a type of constrained minimization where internal
parameters(bond angle,bond length,backbone torsion angle) of helix is
fixed its behaving as one big molecule. So it is moving as one
molecule from one place to another without disturbing the helix

Can you please tell me the process to carry these things.


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