[go] ISA/ISO

[Valerie Wood]

In support of the final sibling arrangement of ISA/ISO, I came across an 
example today where gene products are known to be orthologous but have 
no sequence conservation which I thought I would share.

Identification of the Proteins, Including MAGEG1, That Make Up the
 Human SMC5-6 Protein Complex
Elaine M. Taylor, Alice C. Copsey, Jessica J. R. Hudson, Susanne Vidot, 
and Alan R. Lehmann
quote
"Nse6 contains ARM/HEAT repeats, but there is no sequence conservation 
between these presumed orthologs from S. cerevisiae/ and /S. pombe/. In 
/S. pombe/ they also appear to bridge the head domains of Smc5 and Smc6"

where it is not even possible to detect the similarity between the 2 
nse6 subunits in yeast and pombe but they are presumed orthologs from 
other biological properties and position in the complex, binding 
partners etc.
These are NOT reciprocal best hits, and although they can be aligned, 
(you can align anything) it does not mean, that if I inferred any  
experimental data from the S. cerevisiae ortholog it would come from a 
sequence alignment.

I should also add that this is very common which also has large 
implications for the orthology prediction exercise.


Val



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