Solution conformation of [AF]dG opposite a - 1 deletion site in a DNA duplex: Intercalation of the covalently attached aminofluorene ring into the Helix with base development of the C{sup 8}-modified syn guanine into the major groove
- Memorial Sloan-Kettering Cancer Center, New York, NY (United States); and others
This paper reports on the solution structure of the [AF]dG adduct positioned opposite a deletion site in a DNA oligomer duplex that defines the alignment of the covalent aminofluorene-C{sup 8}-guanine adduct relative to the deletion site. The combined NMR molecular mechanics computational studies were undertaken on the [AF]dG adduct embedded in the d(C5-[AF]G6-C7){sm_bullet}d(G16-G17) sequence context in a duplex containing 11 residues on the modified strand and 10 on the partner, with no base opposite the modification. The exchangeable and nonexchangeable protons of the aminofluorene moiety and the nucleic acid were assigned following analysis of two-dimensional NMR data sets in H{sub 2}O and D{sub 2}O solution. The solution conformation of the [AF]dG{sm_bullet}del 11-mer duplex has been determined by incorporating intramolecular and intermolecular proton-proton distances defined by lower and upper bounds deduced from NOESY spectra as restraints in molecular mechanics computations in torsion angle space. 45 refs., 9 figs., 2 tabs.
- Sponsoring Organization:
- USDOE
- OSTI ID:
- 415078
- Journal Information:
- Biochemistry (Eaton), Journal Name: Biochemistry (Eaton) Journal Issue: 18 Vol. 34; ISSN 0006-2960; ISSN BICHAW
- Country of Publication:
- United States
- Language:
- English
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