A nanomechanical device based on the B–Z transition of DNA

@article{Mao1999AND,
  title={A nanomechanical device based on the B–Z transition of DNA},
  author={Chengde Mao and Weiqiong Sun and Zhiyong Shen and Nadrian C. Seeman},
  journal={Nature},
  year={1999},
  volume={397},
  pages={144-146}
}
The assembly of synthetic, controllable molecular mechanical systems is one of the goals of nanotechnology. Protein-based molecular machines, often driven by an energy source such as ATP, are abundant in biology,. It has been shown previously that branched motifs of DNA can provide components for the assembly of nanoscale objects, links and arrays. Here we show that such structures can also provide the basis for dynamic assemblies: switchable molecular machines. We have constructed a… 

A molecular machine made and powered by DNA

TLDR
The construction of a new class of active nanostructure: a machine in which DNA is used not only as a structural material but also as a fuel.

A DNA-fuelled molecular machine made of DNA

TLDR
The construction of a DNA machine in which the DNA is used not only as a structural material, but also as ‘fuel’; each cycle produces a duplex DNA waste product.

A robust DNA mechanical device controlled by hybridization topology

TLDR
It is shown that DNA strands control and fuel the device cycle by inducing the interconversion between two robust topological motifs, paranemic crossover (PX) DNA and its topoisomer JX2 DNA, in which one strand end is rotated relative to the other by 180°.

Two Dimensions and Two States in DNA Nanotechnology

TLDR
Although individual branched junctions are unsuitable for use as crystalline components, parallelograms of four 4-arm junction molecules are sufficiently rigid that they can be used to produce 2D arrays, and these arrays contain cavities whose dimensions are readily tuned by changing the edges of their parallelogram components.

A DNA-fuelled molecular machine made of DNA

TLDR
The construction of a DNA machine in which the DNA is used not only as a structural material, but also as `fuel', is reported, in which double-stranded DNA has a persistence length of the order of 100 base pairs.

Nucleic Acid Nanostructures: Bottom-Up Control of Geometry on the Nanoscale.

DNA may seem an unlikely molecule from which to build nanostructures, but this is not correct. The specificity of interaction that enables DNA to function so successfully as genetic material also

A DNA-based nanomechanical device with three robust states

TLDR
This work describes a system in which three different structurally robust end states can be obtained, all resulting from the addition of different set strands to a single floppy intermediate, an extension of the PX-JX2 DNA device.

DNA Quadruple Helices in Nanotechnology.

TLDR
This review focuses on two noncanonical classes of DNA helices: G-quadruplexes and the i-motif, which have been utilized toward some remarkable constructions and applications.

Direct and real-time observation of rotary movement of a DNA nanomechanical device.

TLDR
The construction of a rotary motor based on the B-Z conformational transition of DNA and the direct and real-time observation of its function within a frame-shaped DNA origami are reported and shed light on the fundamental understanding of DNA conformations.

Nanomaterials based on DNA.

  • N. Seeman
  • Chemistry
    Annual review of biochemistry
  • 2010
TLDR
This work has shown that it is possible to construct novel DNA-based materials by combining these features in a self-assembly protocol by constructing polyhedrons, whose edges consist of double helical DNA and whose vertices correspond to the branch points.
...

References

SHOWING 1-10 OF 26 REFERENCES

DNA nanotechnology: novel DNA constructions.

  • N. Seeman
  • Biology
    Annual review of biophysics and biomolecular structure
  • 1998
TLDR
It appears that novel DNA motifs may be of use in the new field of DNA-based computing, particularly in periodic arrays, with the objects of both crystal facilitation and memory-device construction.

Synthesis from DNA of a molecule with the connectivity of a cube

TLDR
This work reports the construction from DNA of a covalently closed cube-like molecular complex containing twelve equal-length double-helical edges arranged about eight vertices, the first construction of a closed polyhedral object from DNA.

Design and self-assembly of two-dimensional DNA crystals

TLDR
The design and observation of two-dimensional crystalline forms of DNA that self-assemble from synthetic DNA double-crossover molecules that create specific periodic patterns on the nanometre scale are reported.

Nucleoprotein-based nanoscale assembly.

A system for addressing in the construction of macromolecular assemblies can be based on the biospecificity of DNA (cytosine-5) methyltransferases and the capacity of these enzymes to form abortive

A chemically and electrochemically switchable molecular shuttle

THE developing field of nanotechnology has generated wide interest across a broad range of scientific disciplines1. In particular, the realization of nanoscale switching devices might have

Molecular redox switches based on chemical triggering of iron translocation in triple-stranded helical complexes

THEgrowing interest in miniaturization of electronic components is stimulating research on molecular assemblies with device-like functionalities1–5. Molecule-based devices have been reported that

Physical models for exploring DNA topology.

  • N. Seeman
  • Biology
    Journal of biomolecular structure & dynamics
  • 1988
TLDR
Two types of physical models have been developed for treating DNA molecules whose topology is of interest, which present a low-resolution construct of DNA that retains helix axes, strand individuality and the distinguishability of the major and minor grooves.

Determination of DNA helical handedness by fluorescence resonance energy transfer.

TLDR
The method has been applied to a family of oligonucleotides forming hairpin duplexes containing an antiparallel-stranded (aps) d(m5C.G)m and concluded that psAT-DNA has a helical rise and twist close to that of B-DNA.

Three-arm nucleic acid junctions are flexible.

TLDR
It is shown here that junctions which contain three double helical arms can be enzymatically oligomerized, using conventional sticky-ended ligation procedures, to create larger complexes.

Torsional control of double-stranded DNA branch migration.

TLDR
A partially mobile DNA branched junction has been incorporated into a synthetic double-stranded circular DNA molecule, which represents a system whereby torque applied to the circular molecule can have an impact on the junction, by relocating its branch point.