[ssml] Unusual amino-acid composition ?

[Daniel Rigden]

Hi Gerard

SAPS gives you stats related to overall composition, as well as a bunch
of other things

http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=1549558&query_hl=28
http://www.isrec.isb-sib.ch/software/SAPS_form.html

Regards

Dan

On Thu, 2005-06-16 at 17:02 +0200, Gerard DVD Kleywegt wrote:
> hi all,
> 
> we are writing up the structure determination of a dimeric human enzyme. while 
> going through the model (~750 residues per monomer), i noticed that the 
> protein contains rather few lysines (1.8%) and isoleucines (2.7%), and rather 
> many prolines (7.5%) and phenylalanines (6.5%). (if i remember correctly, 
> there are no low-complexity regions in the sequence.)
> 
> i would be grateful for any clues or literature references that might tell us 
> if this is statistically to be expected or unusual and -if the latter- what 
> could explain it, and whether or not it might have any significance. also, a 
> pointer to a table of the average amino-acid composition of soluble human 
> proteins (or enzymes) would be useful.
> 
> thanks in advance for any input !
> 
> --gerard
> 
> ******************************************************************
>                          Gerard J.  Kleywegt
>      [Research Fellow of the Royal  Swedish Academy of Sciences]
> Dept. of Cell & Molecular Biology  University of Uppsala
>                  Biomedical Centre  Box 596
>                  SE-751 24 Uppsala  SWEDEN
> 
>      http://xray.bmc.uu.se/gerard/  mailto:gerard at xray.bmc.uu.se
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Dr Daniel John Rigden                     Tel:(+44) 151 795 4467
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