mathematical function to fit DNA and protein structure

Peter Slickers slickers at imb-jena.de
Wed Mar 18 04:31:19 EST 1998


You wrote:
> 
> Dear Netters:
> 
> 	I am searching for the method or program to fit the DNA double 
> helix backbone (straight or bent) and alpha helix backbone of protein by 
> mathematical function, for extracting structrual information from 
> existing structures. Any suggestion is appreciated.
> 
> Thanks in advance.
> 
> 	Wen-Shyong Tzou
> 
> 
>        | *               Wen-Shyong Tzou
>        |           /~~\    Ph.D. candidate
>        | *        /   /  Laboratory for Computer Modeling of Biomolecules
>        /         /    \	 Institute of Biomedical Sciences, Academia Sinica
>       /         /      \   Nankang, Taipei, Taiwan, R.O.C.
>      /         /       |   Address: P.O. Box 1-99, Nankang, Taipei, Taiwan 
>     /         /        |                  
>    /    <*>  |        /  e-mail: wstzou at sinica.edu.tw
>   |          \      /    Phone: (886)-2-27899033
>   /           \    /     Fax:   (886)-2-27887641
> _/             |  /
>                |~|
> 
> 
> 
Dear Wen-Shyong Tzou, 

the most widely used program to calculate the DNA helical axis is
Curves. Curves is developed and provided by R. Lavery [2] and H. Sklenar. 
In a review article [1] the authors describe also the application of
Curves for proteins and alpha-helices. I'm currently working on 
a program which determines the global bending and kinking of the 
curvilinear helical axis obtained by Curves. Please contact me for
details.


Peter


[1]
Lavery, R.; Sklenar, H. A quantitative description of the 
conformation of biological macromolecules. In: Sarma, R. 
H.; Sarma M. H., eds. Structure and Methods, Volume 2: DNA 
protein complexes and proteins. Adenine Press; 1990: p. 
215-235.

[2]
email:  richard at ibpc.fr
WWW:    http://www.ibpc.fr:8080/9080_Bioth/9080.html



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