Re: CCL:Alpha Helix kink

[Xavier Deupi <Xavier.Deupi %x% stanford.edu>]

 Hi Mireille,
You can also use HelAnal (Bansal et al. J Biomol Struct Dyn. 2000
 Apr;17(5):811-9) to detect and measure local distortions of the helical
 structure, in terms of local (i.e. per residue) bend and twist angles.
 You can see an application to Pro-kinked alpha-helices in Deupi et al.,
 Biophys J. 2004 Jan;86(1 Pt 1):105-15.
 Hope this helps,
 xavi
 Mireille Krier wrote:
>  Dear CCLers,
> we are looking for a tool that can detect (because not always induced
>  by proline)
>  and measure the angle of an kink in an alpha helix.
>  Any suggestions?
>  We found in the literature SWINK, (Cordes et al., Sansom Group)
> was developed to estimate the kink and swivel angle of TM small alpha,
>  Greek-helices.
>  Any ideas, if this is available?
>  Many thanks in advance to the community for the any help provided.
>  Mireille Krier
 --
 Xavier Deupi, Ph.D.
 Department of Molecular and Cellular Physiology
 Beckman Center for Molecular and Genetic Medicine (B161)
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