(unknown charset) [AMBER] DNA methylation parameters

From: (unknown charset) 李振东 <zhendongli1995.126.com>
Date: Mon, 23 Sep 2019 21:10:17 +0800 (CST)

Dear amber developers and users,

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?

Best regards,

Zhendong Li
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Received on Mon Sep 23 2019 - 06:30:04 PDT
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