We identify and characterize MlaA, a novel protein, which is found in a conserved operon with Mre11 and Rad50 in archaeal genomes. MlaA is fused with Mre11 in Methanobacter thermoautotrophicus, suggesting the MlaA is functionally linked to the Mre11 complex. MlaA preferentially and cooperatively binds double-stranded and secondary structure containing DNA and has double-stranded but not single-...

A molecular system of a nanometer-sized reel was developed from F(1)-ATPase, a rotary motor protein. By combination with magnetic tweezers and optical tweezers, single-molecule double-stranded DNA (dsDNA) was wound around the molecular reel. The bending stiffness of dsDNA was determined from the winding tension (0.9-6.0 pN) and the diameter of the wound loop (21.4-8.5 nm). Our results were in g...

We have studied the separation of a double stranded DNA (dsDNA), which is driven by either the temperature or force. By monitoring the probability of opening of entire base pairs along the chain, we show that the opening of a dsDNA depends not only on the sequence but also on the constraints on the chain in the experimental setups. Our results clearly demonstrate that the force-induced melting ...

Peptide nucleic acid (PNA) is an analog of natural acids, where the sugar-phosphate backbone DNA replaced by electrostatically neutral N-(2-aminoethyl)glycine backbone. This unique peptide-based enables PNAs to form a very stable duplex with complementary acids via Watson–Crick base pairing since there no electrostatic repulsion between PNA and DNA·RNA. With this high affinity, have been used i...

The perception of a three-dimensional (3-D) surface shape can be inferred from a 2-D image of two intersecting curves. Three experiments are reported in which we examined a possible method for determining the surface shape as a function of the geometry at the point of intersection. The method involves a two-step process in which the tangents to the two curves determine a skewed Cartesian coordi...

In this study, the interaction of the anthracycline antibiotic doxorubicin with DNA-HMG 1 complex was investigated employing UV/VIS spectroscopy, thermal denaturation and DNA cellulose chromatography techniques. The results indicated that the binding of doxorubicin to the protein reduces its Tm in a dose dependent manner. Although doxorubicin protects free DNA against thermal denaturation ...

We studied the kink-antikink collision process for the "double sine-Gordon" (DSG) equation in 1+1 dimensions at different values of the potential parameter R>0. For small values of R we discuss the problem of resonance frequencies. We give qualitative explanation of the frequency shift in comparison with the frequency of the discrete level in the potential well of isolated kink. We show that in...