A thymine-like base analogue forms wobble pairs with adenine in a Z-DNA duplex
Schuerman, GS × Van Meervelt, Luc Loakes, D Brown, DW Lin, PKT Moore, MH Salisbury, SA #
Academic press ltd
Journal of Molecular Biology vol:282 issue:5 pages:1005-1011
The DNA hexamer d(CACGPG), in which dP is the ambivalent pyrimidine nucleoside analogue 2'-deoxy-beta-D-ribofuranosyl-(6H,8H-3,4-dihydropyrimido[4,5-c][1,2]oxazin-7-one), crystallises as a left-handed Z-DNA duplex. X-ray analysis at 1.5 Angstrom shows that both PA base-pairs are of the wobble type. This result appears inconsistent with other evidence from hybridisation and NMR studies of P-containing oligonucleotides, which suggests that, while P can form stable base-pairs with either A or G, thymine-like properties are more pronounced. Thermal denaturation experiments over a range of solution pH values indicate that protonation of the P A base-pairs is unlikely to be responsible for the anomalous behaviour. No specific crystal packing effects can be identfied as an explanation and it is concluded that base stacking and other interactions between nucleotide residues in Z-DNA are responsible. (C) 1998 Academic Press.