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Full-Text Articles in Physical Sciences and Mathematics
Relative Stabilities Of Dna 3-Way, 4-Way And 5-Way Junctions (Multi-Helix Junction Loops) - Unpaired Nucleotides Can Be Stabilizing Or Destabilizing, Neocles B. Leontis, Julie L. Kardmas, Amy J. Ravin
Relative Stabilities Of Dna 3-Way, 4-Way And 5-Way Junctions (Multi-Helix Junction Loops) - Unpaired Nucleotides Can Be Stabilizing Or Destabilizing, Neocles B. Leontis, Julie L. Kardmas, Amy J. Ravin
Chemistry Faculty Publications
Competition binding and UV melting studies of a DNA model system consisting of three, four or five mutually complementary oligonucleotides demonstrate that unpaired bases at the branch point stabilize three- and five-way junction loops but destabilize four-way junctions. The inclusion of unpaired nucleotides permits the assembly of five-way DNA junction complexes (5WJ) having as few as seven basepairs per arm from five mutually complementary oligonucleotides. Previous work showed that 5WJ, having eight basepairs per arm but lacking unpaired bases, could not be assembled I[Wang,Y.L., Mueller,J.E., Kemper,B. and Seeman,N.C. (1991) Biochemistry, 30, 5667-5674]. Competition binding experiments demonstrate that four-way junctions (4WJ) …
Helical Stacking In Dna 3-Way Junctions Containing 2 Unpaired Pyrimidines - Proton Nmr-Studies, Neocles B. Leontis, Michael T. Hills, Martial Piotto, Igor V. Ouporov, Arun Malhotra, David G. Gorenstein
Helical Stacking In Dna 3-Way Junctions Containing 2 Unpaired Pyrimidines - Proton Nmr-Studies, Neocles B. Leontis, Michael T. Hills, Martial Piotto, Igor V. Ouporov, Arun Malhotra, David G. Gorenstein
Chemistry Faculty Publications
The proton NMR spectra of DNA three-way junction complexes (TWJ) having unpaired pyrimidines, 5'-TT- and 5'-TC- on one strand at the junction site were assigned from 2D NOESY spectra acquired in H2O and D2O solvents and homonuclear 3D NOESY-TOCSY and 3D NOESY-NOESY in D2O solvent. TWJ are the simplest branched structures found in biologically active nucleic acids. Unpaired nucleotides are common features of such structures and have been shown to stabilize junction formation. The NMR data confirm that the component oligonucleotides assemble to form conformationally homogeneous TWJ complexes having three double-helical, B-form arms. Two of the helical arms stack upon …