Naming of phosphate oxygens in nucleotides

gjacobs at chmeds.ac.nz gjacobs at chmeds.ac.nz
Sun Nov 26 16:31:13 EST 1995


gabb at europa.lif.icnet.uk (Henry Gabb) writes:
> Peter Slickers (slickers at imb-jena.de) wrote:
> 
> [deleted]
> 
> : DOES anybody knows if there is any recommendation for the naming of the 
> : two phosphate oxygens OP1 and OP2 according to their position in 
> : relation to the central P ?
> 
> To the best of my knowledge, nobody makes the distinction between these
> substituents because there is rarely a reason to do so.  At least I can't
> think of any right now.  They are chemically equivalent.  Just out of
> curiosity, why do you want to distinguish between them?
> 

Just to given another example: I am looking at protein-DNA complexes.
Imagine I have superimposed two related interactions. Unfortunately,
the OP's have inequivalent names despite being clearly equivalent...
it makes it pretty confusing when it comes to discussing the 
interactions...

Grant Jacobs
ghj at chmeds.ac.nz



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