Dear Gromacs users,<br> I am beginner in using using GROMACS and MD simulations, Please help me in solving my problem.<br> I simulate my protein for 5 ns and after simulations RMSD in C-alpha is showing a big fluctuation after 3 ns and til 3.5 ns to 4.5 ns its fine and again its showing fluctuation its till 2.5 nm. Please Tell me how should I analyze this and How can I sort out this problem.<br>
<br> Thanking you<br clear="all"><br>-- <br>Anamika Awasthi, PhD<br>DBT-Postdoctoral Fellow<br>Laboratory of Structural Biology <br>Centre for DNA Fingerprinting and Diagnostics (CDFD)<br>ECIL Road, Nacharam<br>Hyderabad 500 076 <br>
INDIA