Re: [AMBER] Make some of RNA bases as DNA in leap

From: David A Case <>
Date: Mon, 28 Sep 2020 21:47:12 -0400

On Mon, Sep 28, 2020, Athena N wrote:

>Would the 2’-OH of the RNA read as H in such cases?

If you are reading in an RNA pdb file (this wasn't clear before) then
you should manually remove the O2' (and HO2') atoms for the residues
that will become DNA. Don't be afraid to experiment -- you could easily
find that the answer to your question is "no" just by trying it.


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Received on Mon Sep 28 2020 - 19:00:02 PDT
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