X-ray Crystal Structures Show DNA Stacking Advantage of Terminal Nitrile Substitution in Ru-dppz Complexes.

The new complexes [Ru(TAP) ₂ (11-CN-dppz)] ²⁺ , [Ru(TAP) ₂ (11-Br-dppz)] ²⁺ and [Ru(TAP) ₂ (11,12-diCN-dppz)] ²⁺ are reported. The addition of nitrile substituents to the dppz ligand of the DNA photo-oxidising complex [Ru(TAP) ₂ (dppz)] ²⁺ promote π-stacking interactions and ordered binding to DNA, as shown by X-ray crystallography. The structure of Λ-[Ru(TAP) ₂ (11-CN-dppz)] ²⁺ with the DNA duplex d(TCGGCGCCGA) ₂ shows, for the first time with this class of complex, a closed intercalation cavity with an AT base pair at the terminus. The structure obtained is compared to that formed with the 11-Br and 11,12-dinitrile derivatives, highlighting the stabilization of syn guanine by this enantiomer when the terminal base pair is GC. In contrast the AT base pair has the normal Watson-Crick orientation, highlighting the difference in charge distribution between the two purine bases and the complementarity of the dppz-purine interaction. The asymmetry of the cavity highlights the importance of the purine-dppz-purine stacking interaction.
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