Protein Fold Question

Lukasz Salwinski lukasz at mbi.ucla.edu
Thu Jan 14 12:04:16 EST 1999


-- 

>Dear All,
>
>This is just a question borne purely out of curiosity. As far as I am
>aware, the TIM barrel is the most prevalent fold in the PDB database.
>However, I was wondering what the actual percentage of known structures
>have this fold. I have been rather lazy and just tried SCOP (Cambridge)
>but couldn't find anything there. Can someone please direct me to a web
>page which has up-to-date statistics of the frequency of all the
>different fold classifications.
>
>Many Thanks
>
>Paul Hubbard (Graduate Student)


scop entries are indexed with five numbers seperated by a full stop; the numbers define the class, 
fold, super family, family and protein of the domain respetively. 

so grab the file with the list of all scop sequence, find the appropriate code and
grep-out TIM barrels...

it turns out that (unless I screwed up something) out of 9532 sequences in scop there are   
395 corresponding to TIM barrel fold (3.1.x.x.x) 


lukasz




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