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AMBER Archive (2004)Subject: AMBER: Low frequency in quasi-harmonic analysis!!
From: Pradipta Bandyopadhyay (pradipta_b_at_mail.jnu.ac.in)
Hi,
I am doing quasih analysis using AMBER 7. I have 7500 coordinate sets. I am doing it for only the C-alpha atoms of my protein. It seems my frequencies are too low. From 0.290 (lowest)to 1.45 (highest)
trajin je_prodcor_1.mdcrd.gz 1 1250
and my quasih input is;
quasih -natom 190 -nmode 50 -first 1 -last 7500 -m trunc.mass -f 2 < trunc_out > & trunc_quasih &
Am I doing something wrong?
Pradipta
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