Dear Amber user
Can you please help me to understand the output of dssp calculation in
amber.
I have run a short (20ns)MD simulation of protein. I am not getting the
clear understanding of output file columns as mentioned below. Could you
please guide me a little how should I interpret it? Please find the output
file attached.
#Residue Extended Bridge 3-10 Alpha Pi
Turn Bend
1 0.0000 0.0000 0.0000 0.0000 0.0000
0.0000 0.0000
2 0.0000 0.0000 0.0000 0.0000 0.0000
0.0000 0.0000
3 0.0000 0.0000 0.0000 0.0000 0.0000
0.0000 0.0495
4 0.0000 0.0000 0.0000 0.0000 0.0000
0.0000 0.0000
5 0.0320 0.0000 0.0000 0.0000 0.0000
0.0000 0.0000
6 0.9995 0.0000 0.0000 0.0000 0.0000
0.0000 0.0000
7 1.0000 0.0000 0.0000 0.0000 0.0000
0.0000 0.0000
8 1.0000 0.0000 0.0000 0.0000 0.0000
0.0000 0.0000
9 1.0000 0.0000 0.0000 0.0000 0.0000
0.0000 0.0000
10 1.0000 0.0000 0.0000 0.0000 0.0000
0.0000 0.0000
Regards
Sadaf
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Received on Fri May 07 2021 - 00:00:02 PDT
