Biomimetic Compartments Scaffolded by Nucleic Acid Nanostructures

Fu, Jinglin; Oh, Sung Won; Monckton, Kristin; Arbuckle-Keil, Georgia; Ke, Yonggang; Zhang, Ting

doi:10.1002/smll.201900256

Cited by 14 publications

(24 citation statements)

References 103 publications

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“…e DNA scaffold-directed assembly of biomolecular complexes. Reproduced from Fu et al [36], with permission, copyright 2019, John Wiley and Sons N-or C-terminus cleavable upon the addition of a reducing reagent, such as T-CEP or mercaptoethanol, while the linkage of SMCC is not cleavable. SMCC and SPDP crosslinkers are generally not site-specific in their reaction with lysines due to the presence of multiple lysine residues on the protein surface.…”

Section: Protein-dna Bioconjugationmentioning

confidence: 99%

“…In cellular metabolism, the function of multienzyme cascades largely depends on their spatial organization, such as the relative distance, orientation, stoichiometry and confinements of the individual protein components [3]. Self-assembled DNA nanostructures are promising scaffolds on which to organize macromolecules because of the spatial addressability of DNA nanostructures [36]. Through various conjugations linking proteins with nucleic acids, DNA nanostructures are capable of controlling multienzyme assemblies in 1D, 2D, and three-dimensional (3D) geometric patterns that can be used to boost catalytic efficiency, improve reaction selectivity and investigate mechanistic kinetics of multienzyme reactions.…”

Section: Spatial Organization Of Multienzyme Assemblies On Dna Nanostmentioning

confidence: 99%

“…In addition to swinging arms, DNA nanostructures can also be used to engineer artificial membrane transporters to facilitate the diffusion of ions and small molecules across lipid membranes [36]. Ohmann and co-workers recently designed a [126], with permission, copyright 2009, American Chemical Society.…”

Section: Biomimetic Assembly Of Macromolecular Complexesmentioning

confidence: 99%

“…DNA nanostructures are promising assembly scaffolds for positioning other elements into diverse patterns at the nanoscale [36,37]. As shown in Fig.…”

Section: Introductionmentioning

confidence: 99%

“…As shown in Fig. 2d, DNA scaffold-directed assembly has the advantages of programmable and prescribed geometry, sequence-addressable assembly and adaptability to various bioconjugations [36]. Utilizing these unique features, Researchers have used DNA nanostructures to assemble complex biomolecular systems, such as multienzyme complexes, protein confinement and biomimetic channeling [37,38].…”

Section: Introductionmentioning

confidence: 99%

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DNA-Scaffolded Proximity Assembly and Confinement of Multienzyme Reactions

Wang

Liang

et al. 2020

Top Curr Chem (Z)

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Cellular functions rely on a series of organized and regulated multienzyme cascade reactions. The catalytic efficiencies of these cascades depend on the precise spatial organization of the constituent enzymes, which is optimized to facilitate substrate transport and regulate activities. Mimicry of this organization in a non-living, artificial system would be very useful in a broad range of applications-with impacts on both the scientific community and society at large. Self-assembled DNA nanostructures are promising applications to organize biomolecular components into prescribed, multidimensional patterns. In this review, we focus on recent progress in the field of DNA-scaffolded assembly and confinement of multienzyme reactions. DNA self-assembly is exploited to build spatially organized multienzyme cascades with control over their relative distance, substrate diffusion paths, compartmentalization and activity actuation. The combination of addressable DNA assembly and multienzyme cascades can deliver breakthroughs toward the engineering of novel synthetic and biomimetic reactors.

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Section: Protein-dna Bioconjugationmentioning

confidence: 99%

Section: Spatial Organization Of Multienzyme Assemblies On Dna Nanostmentioning

confidence: 99%

Section: Biomimetic Assembly Of Macromolecular Complexesmentioning

confidence: 99%

“…DNA nanostructures are promising assembly scaffolds for positioning other elements into diverse patterns at the nanoscale [36,37]. As shown in Fig.…”

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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DNA-Scaffolded Proximity Assembly and Confinement of Multienzyme Reactions

Wang

Liang

et al. 2020

Top Curr Chem (Z)

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Synthetic Multienzyme Assemblies for Natural Product Biosynthesis

et al. 2023

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In nature, enzymes that catalyze sequential reactions are often assembled as clusters or complexes. The formation of multienzyme complexes, or metabolons, brings the enzyme active sites into proximity to promote intermediate transfer, decrease intermediate leakage, and streamline the metabolic flux towards the desired products. We and others have developed synthetic versions of metabolons through various strategies to enhance the catalytic rates for synthesizing valuable chemicals inside microbes. Synthetic multienzyme complexes range from static enzyme nanostructures to dynamic enzyme coacervates. Enzyme complexation optimizes the metabolic fluxes inside microbes, increases the product titer, and supplies the field with high-yield microbe strains that are amenable to large-scale fermentation. Enzyme complexes constructed inside microbial cells can be separated as independent entities and catalyze biosynthetic reactions ex vivo; such a feature gains these complexes another name, "synthetic organelles" -new subcellular entities with independent structures and functions. Still, the field is seeking new strategies to better balance dynamicity and confinement and to achieve finer control of local compartmentalization in the cells, as the natural multienzyme complexes do. Industrial applications of synthetic multienzyme complexes for the large-scale production of valuable chemicals are yet to be realized. This review focuses on synthetic multienzyme complexes that are constructed and function inside microbial cells.

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Hybrid Soft Nanomaterials Composed of DNA Microspheres and Supramolecular Nanostructures of Semi‐artificial Glycopeptides

Higashi

Shibata

Kitamura

et al. 2019

Chemistry A European J

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Aqueous hybrid soft nanomaterials consisting of plural supramolecular architectures with a high degree of segregation (orthogonal coexistence) and precise hierarchy at the nano‐ and microscales, which are reminiscent of complex biomolecular systems, have attracted increasing attention. Remarkable progress has been witnessed in the construction of DNA nanostructures obtained by rational sequence design and supramolecular nanostructures of peptide derivatives through self‐assembly under aqueous conditions. However, orthogonal self‐assembly of DNA nanostructures and supramolecular nanostructures of peptide derivatives in a single medium has not yet been explored in detail. In this study, DNA microspheres, which can be obtained from three single‐stranded DNAs, and three different supramolecular nanostructures (helical nanofibers, straight nanoribbons, and flowerlike microaggregates) of semi‐artificial glycopeptides were simultaneously constructed in a single medium by a simple thermal annealing process, which gives rise to hybrid soft nanomaterials. Fluorescence imaging with selective staining of each supramolecular nanostructure uncovered the orthogonal coexistence of these structures with only marginal impact on their morphology. Additionally, the biostimuli‐responsive degradation propensity of each supramolecular architecture is retained, and this may allow the construction of active soft nanomaterials exhibiting intelligent biofunctions.

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Biomimetic Compartments Scaffolded by Nucleic Acid Nanostructures

Cited by 14 publications

References 103 publications

DNA-Scaffolded Proximity Assembly and Confinement of Multienzyme Reactions

DNA-Scaffolded Proximity Assembly and Confinement of Multienzyme Reactions

Synthetic Multienzyme Assemblies for Natural Product Biosynthesis

Hybrid Soft Nanomaterials Composed of DNA Microspheres and Supramolecular Nanostructures of Semi‐artificial Glycopeptides

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