Dear users,
I am trying to study folding pathway of an RNA chain. Starting from an
extended conformation, the chain should adopt a pseudoknot structure. I
don't expect that the structure should ultimately fold into its native
conformation.
Is self-guided langevin dynamics is a good idea to study this kind of
process. There are studies using Temperature replica exchange, but as far
as i have read, it involves reweighing to get canonical ensemble, while
this issue is not there with SGLD.
Please suggest n appropriate method as i couldn't find anything in the
literature using SGLD for RNA folding.
Thanks
Asmita
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Received on Tue Jun 30 2015 - 07:30:03 PDT
