Comparative studies on parallel and antiparallel duplex and triplex DNA

Parallel strand models for base sequences d(A)(10). d(T)(10), d(AT)(5) . d(TA)(5), d(G(5)C(5)). d(C(5)G(5)), d(GC)(5) . d(CG)(5) and d(CTATAGGGAT). d(GATATCCCTA), where reverse Watson-Crick A-T pairing with two H-bonds and reverse Watson-Crick G-C pairing with one H-bond or with two H-bonds were adopted, and three models of d(T)(14). d(A)(14). d(T)(14) triple helix with different strand orientations were built up by molecular architecture and energy minimization. Comparisons of parallel duplex models with their corresponding B-DNA models and comparisons among the three triple helices showed: (i) conformational energies of parallel AT duplex models were a little lower, while for GC duplex models they were about 8% higher than that of their corresponding B-DNA models; (ii) the energy differences between parallel and B-type duplex models and among the three triple helices arose mainly from base stacking energies, especially for GC base pairing; (iii) the parallel duplexes with one H-bond G-C pairs were less stable than those with two H-bonds G-C pairs. The present paper includes a brief discussion about the effect of base stacking and base sequences on DNA conformations. (C) 1997 Academic Press Limited.

Theoretical studies on conformation comparison of braid-like and triplex DNA

Based on the experimental data of scanning tunneling microscopy (STM), models of three-stranded braid-like DNAs composed by three kinds of base triplets AAA, TAT and GCA were constructed. We investigated the braid-like DNAs and their comparative tripler DNAs using a molecular mechanics method. The three strands of braid-like DNAs are proven equivalent, while those of tripler DNAs are not. The conformational energies for braid-like DNAs were found to be higher than that for tripler DNAs. Each period in one strand of braid-like DNA has 18 nucleotides, half of which are right-handed, while the other half are left-handed. Additional discussions concerning sugar puckering modes and the H-bonds are also included. (C) 1999 Elsevier Science B.V. All rights reserved.

Simulation studies on the magnetization of (RE)BCO bulk superconductors using various split-coil arrangements

Simulation studies were conducted on the magnetization of (RE)BCO (RE-Ba-Cu-O, where RE represents a rare earth element) bulk superconductors using various split-coil arrangements by solving the critical state equation using the commercial software FlexPDE. A pair of coaxial coils of identical size is identified as an optimum arrangement for practical magnetization at 77K by the zero-field cooling technique. In general, the magnetization process is likely to be most effective when the outer radius of the coils lies between 100% and 50% of the sample radius. A relatively large coil pair is necessary for samples with either a smaller aspect ratio or larger values of J c0. Two different regimes of flux penetration are found to be involved in the magnetization process. For a sufficiently small sample, the penetration field is determined by flux propagation from beneath the coil to the centre of the sample; for a sufficiently large sample, the definitive propagation route is from beneath the coil to the periphery of the sample. Effective split-coil magnetization occurs only in the former regime, and both penetration regimes are completely different from that involved in the solenoidal-coil magnetization process. © 2012 IOP Publishing Ltd.

Theoretical and experimental studies on Jc and AC losses of 2G HTS coils

This paper begins with introducing the winding techniques of two superconducting double-pancake coils wound using 2G coated conductors. These winding techniques are able to guarantee a good performance for the superconducting coils. Then the coil critical currents were measured and compared with a simulation model. The results were consistent. Finally the coil AC losses were measured using an experimental circuit including a compensation coil. The simulation results are close to the experiment results. © 2010 IEEE.