Conformation and dynamics of Z-DNA oligomer duplex of d[(CG)3TATA(CG)3] in solution.

The conformation and dynamics of a DNA oligomer, d[(CG)3TATA(CG)3], in 4M NaClO4 (Z-TATA 16 mer) have been studied by 1H NMR. The principal results of our investigation are: (i) at low temperature d[(CG)3TATA(CG)3] exists as duplexes in both low (0.1M NaCl) and high (4M NaClO4) ionic strength solutions; (ii) CGCGCG segments undergo the B-to-Z transition in 4M NaClO4; (iii) even in 4M NaClO4 the TATA box exhibits non-Z-structures and possesses multiple conformations which are slowly exchanging on the NMR chemical shift difference time scale; and, (iv) the Z-type structure of the CGCGCG segments induced in 4M NaClO4 is more conformationally mobile than its B-type counterpart in 0.1M NaCl on the nanosecond time scale.