Re: [AMBER] Protein RNA complex simulation best standards in the field.

From: Guberman-Pfeffer, Matthew via AMBER <amber.ambermd.org>
Date: Wed, 28 Aug 2024 02:19:49 +0000

Hi Debarati,

You may find this tutorial helpful from the great folks in the York group: https://ambertutorials-rutgerslbsr-c744272d5a9c1169e0dc9e19b8d800019105.gitlab.io/workshop/02_intoMD/MTR1/Build_MTR1.html

Best,
Matthew

On Aug 27, 2024, at 7:16 PM, Debarati DasGupta via AMBER <amber.ambermd.org> wrote:

Hi all,
I am trying to gain some insights on how best to proceed with some protein RNA complex simulations. What forcefields are recommended? I am assuming we have to use either ff14SB or 19SB as the RNA-OL3 can only parametrize RNA bases? Any ideas/suggestions. Do's and Don'ts will be much appreciated.


Thanks
Debarati
_______________________________________________
AMBER mailing list
AMBER.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber

_______________________________________________
AMBER mailing list
AMBER.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber
Received on Tue Aug 27 2024 - 19:30:02 PDT
Custom Search