A Photon‐Fueled DNA Nanodevice that Contains Two Different Photoswitches

Nishioka, H.; Liang, Xingguo; Kato, Tomohiro; Asanuma, Hiroyuki

doi:10.1002/anie.201106093

Cited by 97 publications

(114 citation statements)

References 33 publications

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“…[67][68][69] Their motion may be actuated by the targets themselves, sacrificial staple strands or aptamers (synthetically designed DNA/RNA motifs), or lightutilizing oligonucleotide sequences chemically modified with photoswitching molecules such as azobenzene. [70][71][72][73] The recognition of targets by DNA or RNA devices that induce sophisticated secondary functions based on Boolean logic-gated mechanisms are particularly impressive, utilizing conjunction (AND), disjunction (OR), or negation (NOT) operations. 74 Logic-gate operations performed by DNA were demonstrated by Adleman and Lipton two decades ago, but DNA-based computing remains underdeveloped due to challenges associated with scale-up and slow reaction kinetics.…”

Section: Molecular Switches Rotors and Motorsmentioning

confidence: 99%

Controlling Motion at the Nanoscale: Rise of the Molecular Machines

et al. 2015

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As our understanding and control of intra- and intermolecular interactions evolve, ever more complex molecular systems are synthesized and assembled that are capable of performing work or completing sophisticated tasks at the molecular scale. Commonly referred to as molecular machines, these dynamic systems comprise an astonishingly diverse class of motifs and are designed to respond to a plethora of actuation stimuli. In this Review, we outline the conditions that distinguish simple switches and rotors from machines and draw from a variety of fields to highlight some of the most exciting recent examples of opportunities for driven molecular mechanics. Emphasis is placed on the need for controllable and hierarchical assembly of these molecular components to display measurable effects at the micro-, meso-, and macroscales. As in Nature, this strategy will lead to dramatic amplification of the work performed via the collective action of many machines organized in linear chains, on functionalized surfaces, or in three-dimensional assemblies.

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Section: Molecular Switches Rotors and Motorsmentioning

confidence: 99%

Controlling Motion at the Nanoscale: Rise of the Molecular Machines

et al. 2015

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“…Although several stimuli-responsive DNA conjugates that change their local conformation have been reported [43][44][45] , the systems of allosteric control of the global DNA structures are quite limited 9,17,46,47 . Even more, as far as we know, there is no precedent of conformational modulation of DNA aiming at sequence edition.…”

Section: Discussionmentioning

confidence: 99%

“…To construct the system for artificial (non-enzymatic or chemical) splicing of DNA, we can choose appropriate clipping reactions from many bioorthogonal chemistries including click reactions 48,49 and photochemical reactions 37,[44][45][46]50 . The techniques could be applied for signal amplification in bioanalyses through DNA circuits based on autonomous succession of strand exchange 26,51 .…”

Section: Discussionmentioning

confidence: 99%

Metal ion-directed dynamic splicing of DNA through global conformational change by intramolecular complexation

et al. 2015

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Chemically engineered DNAs-in which global conformation can be modulated in response to specific stimuli-could be allosteric functional DNAs themselves or work as a modulator of the functional nucleic acids such as DNAzymes and aptamers. Here, we show that two terpyridines built in the DNA backbone form a stable intramolecular 1:2 complex, [M(terpy) 2 ] 2 þ , with divalent transition metal ions. Upon complexation, the DNA conjugates adopt a O-shape structure, in which two distal sequences located outside the terpyridines connect with each other to form a continuous segment with a specific structure or sequence. Such a DNA structure is globally controlled by local metal complexation events that can be rationally designed based on general coordination chemistry. This method is regarded as metal ion-directed dynamic sequence edition or DNA splicing. DNAzymes with peroxidaselike activity can thus be regulated by several transition metal ions through sequence edition techniques based on the O-motif.

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“…On the other hand, a nanomachine formed from three oligonucleotides achieved a seesaw-like motion when it is repeatedly irradiated by the light of different wavelengths. 400 Both sides of the seesaw are composed of oligonucleotides bearing several azobenzene molecules (but the azobenzenes in only one side are chemically modified; vide infra). When the azobenzenes take the trans-forms, the duplexes with the oligonucleotide used as the framework are sufficiently stable, and both sides of the seesaw are flatly "sitting" on the framework.…”

Section: Determination Of Dna Nanostructures In Solutionsmentioning

confidence: 99%

Chemistry Can Make Strict and Fuzzy Controls for Bio-Systems: DNA Nanoarchitectonics and Cell-Macromolecular Nanoarchitectonics

Komiyama

Yoshimoto

Sisido

et al. 2017

Bulletin of the Chemical Society of Japan

280

131

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In this review, we introduce two kinds of bio-related nanoarchitectonics, DNA nanoarchitectonics and cellmacromolecular nanoarchitectonics, both of which are basically controlled by chemical strategies. The former DNA-based approach would represent the precise nature of the nanoarchitectonics based on the strict or "digital" molecular recognition between nucleic bases. This part includes functionalization of single DNAs by chemical means, modification of the main-chain or side-chain bases to achieve stronger DNA binding, DNA aptamers and DNAzymes. It also includes programmable assemblies of DNAs (DNA Origami) and their applications for delivery of drugs to target sites in vivo, sensing in vivo, and selective labeling of biomaterials in cells and in animals. In contrast to the digital molecular recognition between nucleic bases, cell membrane assemblies and their interaction with macromolecules are achieved through rather generic and "analog" interactions such as hydrophobic effects and electrostatic forces. This cell-macromolecular nanoarchitectonics is discussed in the latter part of this review. This part includes bottom-up and top-down approaches for constructing highly organized cell-architectures with macromolecules, for regulating cell adhesion pattern and their functions in twodimension, for generating three-dimensional cell architectures on micro-patterned surfaces, and for building synthetic/natural macromolecular modified hybrid biointerfaces.

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A Photon‐Fueled DNA Nanodevice that Contains Two Different Photoswitches

Cited by 97 publications

References 33 publications

Controlling Motion at the Nanoscale: Rise of the Molecular Machines

Controlling Motion at the Nanoscale: Rise of the Molecular Machines

Metal ion-directed dynamic splicing of DNA through global conformational change by intramolecular complexation

Chemistry Can Make Strict and Fuzzy Controls for Bio-Systems: DNA Nanoarchitectonics and Cell-Macromolecular Nanoarchitectonics

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