ISSN:
0006-3525
Keywords:
Chemistry
;
Polymer and Materials Science
Source:
Wiley InterScience Backfile Collection 1832-2000
Topics:
Chemistry and Pharmacology
Notes:
Intercalated complexes of the antitumor antibiotic nogalamycin (NGM) with the double-stranded oligonucleotides d(GCGC)2, d(ATAT)2, and d(ACAC) · d(GTGT) are investigated with the theoretical method SIBFA. The amino sugar part of the drug locates preferentially in the minor groove. An intrinsic preference for the d(ATAT)2 sequence over the d(ACAC) · d(GTGT) and d(GCGC)2 sequences is obtained, corresponding to relative energies 0, 11, and 15 kcal/mole, respectively. A mixed sugar-puckering pattern is preferred in the d(ATAT)2 complex while a uniform sugar-puckering pattern is preferred for the other sequences. No direct specific interaction involves the N+ - H part of protonated NGM. The location of the amino sugar as well as the sequence selectivity is due to the global electrostatic interaction of the dimethylammonium group with the given groove. The two hydroxyl groups of the amino sugar and the carbonyl of the carbomethoxy group encounter partners for hydrogen bonding at the intercalation site, but these interactions do not appear to govern the base sequence selectivity. The nogalose part is not found to be directly involved in the binding or in the selectivity. The conformations of isolated and intercalated NGM are discussed.
Additional Material:
11 Ill.
Type of Medium:
Electronic Resource
URL:
http://dx.doi.org/10.1002/bip.360270913
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