Re: [AMBER] DNA methylation parameters

From: David Case <>
Date: Sat, 28 Sep 2019 12:49:17 +0000

On Mon, Sep 23, 2019, 李振东 wrote:
>I am trying to run MD simulation for methylated DNA/protein
>system. However, I am having trouble in finding suitable parameters for
>the methylcytosine (such as residue 5CM in pdb 5ef6). I know there are
>many modified protein residues parameters for amber, so I want to ask if
>there are any common modified DNA force filed parameters available, or I
>need to do it myself?

Please visit the contributed parameters database:

and click on the "Nucleic Acids" tab.


AMBER mailing list
Received on Sat Sep 28 2019 - 06:00:05 PDT
Custom Search