[BiO BB] (no subject)

[Boris Steipe]

The CA trace is a sequence of lines connecting CA-atom coordinates in a 
graphic. Sometimes this is also drawn as a curve that passes through 
these coordinates, with various degrees of smoothing. It provides a 
useful view of overall folding topology. A protein backbone contains 
minimally 3 (N,CA,C) or usually 4 (including O) covalently bonded atoms 
of the polypeptide chain. In terms of information this looks very 
similar to a CA trace, but if the carbonyl oxygens are included you can 
see backbone hydrogen bonding patterns.

MaxSprout will generate full coordinates from CA coordinates.
http://www.ebi.ac.uk/maxsprout/
You can simply remove the sidechains afterwards but I can't begin to 
imagine what that would be useful for :-)


Boris




On Wednesday, May 11, 2005, at 07:43 Canada/Eastern, sandeep sharma 
wrote:

> Hi All ,
>
> I need to ask that What is the difference between C
> Aplha Trace of Protein and Protein Backbone..... Also
> if we had a C Alpha Trace how can we approach to find
> the full protein backbone coordinates...There should
> be no side chains but only Protein Backbone
> coordinates ..please tell me all this with relevant to
> PDB files.
>
> Reply Back ASAP
> Sandeep
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