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Stanislav Bobritsky wrote:
<blockquote
cite="mid34c162b50801090530m188d7c19ha99942665028ef5b@mail.gmail.com"
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<pre><b>Ran Friedman wrote:</b>
>Dear Stanislav,
>
>AFAIK there's no "targeted MD" in GMX. You can run EDS or use the
>flooding algorithm.
>
>Ran.
Well, but (as I know from Manual, Ch. 6, p. 120) there is "approach to do targeted MD" in GMX.
</pre>
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Together with an explanation why one should not use it for proteins :-)<br>
<br>
But I guess you know what you need.<br>
<br>
When I read "targeted MD" I think about applying an external force in
order to reduce the RMSD between two structures, so that the dynamics
are somewhat perturbed, as it's done in CHARMM.<br>
<br>
Ran.<br>
<br>
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