Graduate Thesis Or Dissertation
 

Intercalation on hydrocarbons in polynucleotides

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  • The binding of eleven polycyclic, aromatic hydrocarbons to the acid form of poly A has been investigated. The hydrocarbons were chosen to test a size criterion. Model building showed that some hydrocarbons could intercalate in the helix and be well protected from contact with the aqueous solvent. Experimentally it was found that those hydrocarbons which were small enough to be protected were bound to poly A. Hydrocarbons which were too large to be so protected did not bind. A size criterion for the binding of hydrocarbons to poly A therefore exists. The flow dichroism of four poly A-hydrocarbon complexes was measured. The flow dichroism measurements were consistent with the intercalation model. The dissociation energy of several hydrocarbons is found to occur in an order that is different from that given by the size criterion. There was no correlation between the binding of individual hydrocarbons to poly A and the energy of dissocation of individual hydrocarbons from the crystalline state. The size criterion for poly A, together with a previously examined size criterion for DNA, and the flow dichroism data serve as unequivocal evidence that hydrocarbons intercalate in polynucleotides.
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