RE: About ADP

From: Grace Shen (Lingling.Shen_at_bnpi.com)
Date: Tue Nov 01 2005 - 10:15:47 CST

Thank you.

Then could you tell me how can I use that stream file in NAMD? Maybe I
should edit the topology and params files, adding the 'patch' from stream
file?

Then what should be pasted into topology file and what should be pasted into
parameters file?

Thanks,

Grace

-----Original Message-----
From: Michel Espinoza-Fonseca [mailto:mef_at_ddt.biochem.umn.edu]
Sent: Tuesday, November 01, 2005 10:17 AM
To: Grace Shen; NAMD Users List
Subject: RE: namd-l: About ADP

Topology and parameter files for ADP are located in the stream files folder.
There you can find the files you need.
 

________________________________

From: owner-namd-l_at_ks.uiuc.edu on behalf of Grace Shen
Sent: Tue 11/1/2005 9:48 AM
To: NAMD Users List
Subject: namd-l: About ADP

Dear All:

I searched the web and found that a lot of people said that
top_all27_prot_na.inp and par_all27_prot_na.inp files have parameters for
ADP. I only can found top_all27_prot_na.rtf and par_all27_prot_na.prm files
from Alex Mackerell's homepage. But there is no "ADP" information in these
two files.

Could someone please tell me what happened and how can I get ADP force field
parameters?

Thanks,

Grace

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