Naming of phosphate oxygens in nucleotides

Peter Slickers slickers at imb-jena.de
Mon Nov 20 03:58:18 EST 1995


Deoxy-nucleotides have three prochiral centers -- C2', C5', and P. 
This prochiral centers are carrying two identical substituents but
although it is possible to assign unambigously a unique name to 
each substituent. This is done in IUPAC recommendations of 1982 
(1983. Europ J Biochem, 131: 9-15.) for H2'1, H2'2 of C2' and 
H5'1, H5'2 of C5'.  H2'1 and H5'1 are pro-S whereas H2'2 and H5'2 are 
pro-R. 


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 ?


The structural meaning of this would be, whether OP1 is pointing towards
the minor or the major groove in a DNA double helix. 


Peter

---
Peter Slickers                                  slickers at imb-jena.de
Institut fuer Molekulare Biotechnologie
Beutenbergstrasse 11, Jena                      Tel.: +49-3641-65-6202
Postfach 10 08 13, D-07708 Jena, Germany        Fax:  +49-3641-65-6210



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