BH-DNA - VARIATIONS OF THE POLY[D(A)].POLY[D(T)] STRUCTURE WITHIN THE FRAMEWORK OF THE FIBER DIFFRACTION STUDIES

A refinement of the recent results for poly[d(A)]· poly[d(T)] (Alexeev et a., J. Biomol. Struct. Dyn. 4, 989 (1987)) involving additional parameters of the base-pair structure and of the sugar- phosphate backbone expands the conformational potential of this polynucleotide of the B type to include the possibility of bifurcated hydrogen bonds of the kind recently discovered in crystalline deoxyoligonucleotide with lone d(A)n· d(T)n stretch (Nelson et al., Nature 330, 221 (1987)).Still, analysis of the available data and energy calculations do not seem to indicate that the bifurcated H-bonds are a crucial factor responsible for the anomalous structure of the d(A)n ·d(T)n sequence. The unique structural properties of poly [d(A)] ·poly[d(T)] can hardly be explained without taking into account its interactions with the double-layer hydration spine in the minor groove. In view of the hydration mechanism stabilizing poly [d(A)] ·poly [d(T)] and of the polynucleotide’s heteronomous prehistory (Arnott et al., Nucleic Acids Res. 77, 4141 (1983)) we suggest that this B-type structure be called Bh. © 1990 Adenine Press.