AMBER Archive (2006)

Subject: AMBER: MMTSB: phi-pdi-based clustering

Date: Wed Jun 21 2006 - 07:37:39 CDT

Dear Amber users,
Since MMTSB Tool Set is relevant to AMBER, I hope I am not wrongly placing
my question here.
I would appreciate any help on the value of the "mixing factor" to be used
in script, with the "mix" mode clustering of protein structures
i.e. based on phi-psi as well as cartesian RMSD values. In the online
documentation of the "" script, there is a description of how
the mixfactor is used in the calculations but nothing is mentioned about
the value of the factor.
Any hints?
Thanks in advance.
Bioinformatics Centre
University of Pune
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