normal Stiff RNA + ElneDyn for large RNA

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9 months 2 days ago #9233 by mandar
Stiff RNA + ElneDyn for large RNA was created by mandar
Hello Everyone,

I am building CG model of large ribosomal RNA with martinize-nucleotide.py script provided in tutorial folder. I wish to use Stiff elastic network as performed in the MARTINI RNA paper.

I could not find the extra parameters added to topology or itp file after providing -elastic and -ef 1000 option. So, I do not understand how elastic network is handled in MARTINI simulation.

It will be great if I can get some pointers about building stiff elastic network topology with martinize-nucleotide.py script?

Thanks and Regards,
Mandar Kulkarni

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9 months 2 days ago #9234 by mandar
Replied by mandar on topic Stiff RNA + ElneDyn for large RNA
Hi,
I found the options for stiff elastic network as -type ss-stiff -ff elnedyn22nucleic -elastic.

Regards,
Mandar Kulkarni

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