Hello Stefano

I'm only guessing, but the differences you see may be due to 
different algorithms used for evaluating the secondary structure 
motifs in different viewer programs.
For example, a beta strand takes different lengths on "cartoon" 
rendering depending on the program used.

But anyway your observation sounds very interesting. Maybe some 
proteins have a more strict pattern than others, and so you identifiy 
common sub-patterns.


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