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• W1997334393 abstract "NMR studies were carried out on some alternating pyrimidine-purine sequences: the single-stranded tetramers CACA and UGUG and the self-complementary octamer CACAUGUG. Assignments, based upon COSY, homonuclear Hartmann-Hahn, and NOESY experiments, are given for the resonances of all base protons and of several sugar protons. Chemical shift vs temperature profiles were used to obtain thermodynamic parameters for the single-stranded stack ⇆ random coil and the duplex ⇆ random coil equilibria. The populations of N-type conformer of the ribose rings were estimated from the observed J1′2′. Comparisons with another alternating pyrimidine-purine sequence Um62AUm62A and with the deoxyribose counterparts d(CACA), d(TGTG) and d(CACATGTG) are given. Previous 1H-NMR investigations of Um62Um62A revealed that the population of bulge-out structure diminishes compared to m62AUm62A due to the U(1)-m62A(2) stacking interaction. In CACA a strong stacking proclivity (Tm= 310 K) together with a clear preference for N-type ribose is observed. However, the stacking interactions in UGUG are relatively less stable (Tm= 288 K) and a bias towards S-type sugar is present. Besides a small amount of stack, a significant contribution of bulge-out structure is proposed for UGUG. We conclude that the nature of the pyrimidine base mainly determines the formation of bulge-out structures. The poor stacking properties of uracil now appear to be mainly responsible for this phenomenon. Comparison with the deoxyribose counterparts shows a reasonable agreement between the Tm values of CACA and d(CACA), whereas the Tm, of UGUG (288 K) is much lower than the Tm, of d(TGTG) (315 K). It is suggested that the absence of bulge-out structures in DNA purine-pyrimidine-purine sequences is related to the relatively strong stacking proclivity of dT residues compared to that of U residues. The Tm values (average 341 K) for the duplex ⇆ random coil transition obtained for each residue of CACAUGUG appear very similar. All ribose rings, except the G(8), adopt a pure N conformer in the duplex. This is taken to mean that the differences in conformational behaviour of the constituent tetramers disappear upon duplex formation." @default.
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• W1997334393 date "1988-04-01" @default.
• W1997334393 modified "2023-09-27" @default.
• W1997334393 title "Influence of uracil on the conformational behaviour of RNA oligonucleotides in solution" @default.
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• W1997334393 doi "https://doi.org/10.1111/j.1432-1033.1988.tb13998.x" @default.
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