VMD-L Mailing List

From: Christopher MacDermaid (chris.macdermaid_at_gmail.com)
Date: Tue Apr 02 2013 - 10:18:44 CDT

Hello,

There are a couple of options for you, the first and most direct is to use
the following website to generate the coiled-coil backbone, and then thread
your sequence onto it:

http://arteni.cs.dartmouth.edu/cccp/index.gen.html

The other option is to use some tools that I've developed, which are not
currently available publicly, but I can provide to you directly. Please
check out the first option, and let me know if that is what you are looking
for. Otherwise, send me a message and we can work something out.

Chris

On Tue, Apr 2, 2013 at 10:23 AM, shixin yang <shxyang2000_at_yahoo.com> wrote:

> Dear All,
>
> I am a VMD new user and so my question may be very simple. We have
> sequence that construct an alpha-helix. We try to build an alpha helix
> using this sequence and then twist the straight helix to a coiled spring.
> Any suggestion will be greatly appreciated.
>
> Thanks
>
> Shixin
>
>
> 

-- 
--
C
Dr. Chris MacDermaid, Postdoctoral Fellow
Institute for Computational Molecular Science
Temple University, Philadelphia, PA