A Tentative Model of the Intercalative Binding of the Neocarzinostatin Chromophore to Double-stranded Tetranucleotides

Overview

Journal Nucleic Acids Res

Publisher Oxford University Press

Specialty Biochemistry

Date 1987 Mar 11

PMID 2951653

Citations 3

Authors

K X Chen

N Gresh

B PULLMAN

Affiliations

Soon will be listed here.

Abstract

Theoretical computations are performed of the intercalative binding of the neocarzinostatin chromophore (NCS) with the double-stranded oligonucleotides d(CGCG)2, d(GCGC)2, d(TATA)2 and d(ATAT)2. Minor groove binding is preferred over major groove binding. It is found that the long axis of the stacked naphtoate ring lies approximately parallel to the long axis of the base pairs of the intercalation site. The galactosamine ammonium group interacts with specific sites of the groove (O2/N3 of bases 2 and O1' of sugar S3), whereas the dodecadyine ring system wraps around the groove towards the backbone. An overall AT versus GC preference is derived. Intercalation in a central purine-(3', 5')-pyrimidine sequence appears to be preferred over that in a central pyrimidine-(3', 5')-purine sequence.

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References

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Chen K, Gresh N, PULLMAN B . A theoretical study of anthracene and phenanthrene derivatives acting as A-T specific intercalators. Nucleic Acids Res. 1986; 14(22):9103-15. PMC: 311932. DOI: 10.1093/nar/14.22.9103. View

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