Q: PO3-bond free energies in NAD+ 
Author Message
 Q: PO3-bond free energies in NAD+
Hi all you experts!

  I have a question that I haven't been able to figure out by myself or with the
help of my organic chemist friends, so I'll take the liberty to ask you all.

  Where or how can I find the free energies of the following bonds:
The PO3-O-PO3 bonds between the nucleotides in NAD+,
the Phosphor amide bond between epsilon-NH2 of Lysine and the PO3 of AMP
and the PO3-O-PO3 bonds between, say two 5' linked Adenosyl nucleotides. ???

  The reason I ask is that I want to get some Idea of the thermodynamics of the
reaction that bacterial DNA ligases catalyse.  They use NAD+ as their source of
energy in a rather unusual reaction.  They break it up and transfer the AMP part
of it to a Lysine residue and then, in another step, transfer it from the lysine
to the 5' end of the DNA strand being ligated.  (The last step is then a plain
nucleophilic attack by 3'-OH on the other side of the nick).

  I would expect that all these bonds have free energies somewhere close to 33
kj/mol, and that the energies of all the PO3-O-PO3 bonds are very similar, but
then I'm no chemist, so what do I know?  The question is, does anyone have
better estimates?  Do you think the reaction is exothermic or that it's the
concentration of NAD+ that forces it to happen?

Thank you for reading this

Zophonias O. Jonsson
Laboratory of Molecular Genetics
University of Iceland

if you think this is a silly question please flame me by e-mail.

Fri, 24 May 1996 05:03:05 GMT
 [ 1 post ] 

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