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Interactions of polyamines with the DNA octamers d(m 5 CG) 4 and d(GGAATTCC): A 1 H‐NMR investigation
Author(s) -
van Dam Lorens,
Nordenskiöld Lars
Publication year - 1999
Publication title -
biopolymers
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.556
H-Index - 125
eISSN - 1097-0282
pISSN - 0006-3525
DOI - 10.1002/(sici)1097-0282(199901)49:1<41::aid-bip5>3.0.co;2-q
Subject(s) - chemistry , spermine , spermidine , polyamine , nuclear overhauser effect , dna , oligonucleotide , proton nmr , intramolecular force , stereochemistry , two dimensional nuclear magnetic resonance spectroscopy , putrescine , nuclear magnetic resonance spectroscopy , crystallography , organic chemistry , biochemistry , enzyme
The interaction of two DNA octamers, d(m 5 CG) 4 and d(GGAATTCC), with the polyamines spermine 4+ and spermidine 3+ , has been studied by means of 1 H‐nmr nuclear Overhauser effect (NOE) difference measurements. The experiments were performed at 10°C and for a polyamine charge to DNA charge (i.e., phosphate) ratio of 0.4, where the solution of d(m 5 CG) 4 contains about 50% Z‐form of the DNA. The results show that the polyamine intramolecular NOEs for the protons on the propyl chains are similarly negative with the two oligonucleotides, while those on the butyl chain show slightly more negative NOE with d(m 5 CG) 4 than with d(GGAATTCC). The fully N‐methylated analogues of spermine (Me 10 Spn 4+ ) and spermidine (Me 8 Spd 3+ ) as well as the diamines 1,3‐diaminopropane (DAP 2+ ) and 1,4‐diaminobutane (putrescine 2+ ) have been studied for the ability to transform d(m 5 CG) 4 from the B‐ to the Z‐form. 1 H‐nmr spectra showed the order spermine 4+ > spermidine 3+ > Me 10 Spn 4+ > Me 8 Spd 3+ > 1,3‐diaminopropane 2+ > putrescine 2+ , with spermine showing the largest relative amount of Z‐DNA. 1 H‐nmr pulsed‐gradient self‐diffusion measurements of the triamines showed a large difference in the interaction of Spd and Me 8 Spd with the two different duplexes. With the same duplex (either of the two), however, no difference between Spd and Me 8 Spd can be seen. Within a two‐state model this is interpreted as a larger fraction of bound polyamines with d(m 5 CG) 4 than with d(GGAATTCC). © 1999 John Wiley & Sons, Inc. Biopoly 49: 41–53, 1999