Direct characterization of radial modulus of DNA nanotube by AFM nanoindentation

Ma, Zhipeng; Kim, Young-Joo; Park, Seongsu; Hirai, Yoshikazu; Tsuchiya, Toshiyuki; Kim, Do-Nyum; Tabata, Osamu

doi:10.1109/nems.2015.7147496

Cited by 3 publications

(5 citation statements)

References 11 publications

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“…5c, the Young modulus of the crystals was found to be 17.8 ± 2.5 GPa in the x-z plane, significantly higher than the values previously reported for DNA self-assembled nanostructures (Fig. 5d) [9][10][11][12][13][14][15][16][17][18] . The statistical point stiffness of the tetramer was 69.6 ± 6.8 N m −1 (Fig.…”

Section: Resultsmentioning

confidence: 61%

“…12 ; Nanotube from refs. 13,16,17 ; i-Motif from ref. 14 The 2D rendering of the computed results (Fig.…”

Section: Resultsmentioning

confidence: 99%

“…The variety and complexity, along with chemical robustness 5 , make DNA-based building blocks interesting components for nanotechnology [6][7][8] . However, the application of naturally derived DNA-based structures in material science is limited by their low stability and mechanical rigidity, with Young's moduli of 0.3-2 GPa [9][10][11][12][13][14][15][16][17][18] . Such Young's modulus values are significantly lower compared to amino acids and polyamide-based materials, such as peptides, proteins, poly-paraphenylene terephthalamide (Kev-lar®), poly(hexamethylene adipamide; Nylon 66®), and amyloidbased materials, where Young's modulus can be as much as two orders of magnitude higher [19][20][21][22][23][24][25][26][27][28] .…”

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confidence: 99%

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Mechanically rigid supramolecular assemblies formed from an Fmoc-guanine conjugated peptide nucleic acid

et al. 2019

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The variety and complexity of DNA-based structures make them attractive candidates for nanotechnology, yet insufficient stability and mechanical rigidity, compared to polyamidebased molecules, limit their application. Here, we combine the advantages of polyamide materials and the structural patterns inspired by nucleic-acids to generate a mechanically rigid fluorenylmethyloxycarbonyl (Fmoc)-guanine peptide nucleic acid (PNA) conjugate with diverse morphology and photoluminescent properties. The assembly possesses a unique atomic structure, with each guanine head of one molecule hydrogen bonded to the Fmoc carbonyl tail of another molecule, generating a non-planar cyclic quartet arrangement. This structure exhibits an average stiffness of 69.6 ± 6.8 N m −1 and Young's modulus of 17.8 ± 2.5 GPa, higher than any previously reported nucleic acid derived structure. This data suggests that the unique cation-free "basket" formed by the Fmoc-G-PNA conjugate can serve as an attractive component for the design of new materials based on PNA self-assembly for nanotechnology applications.

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Section: Resultsmentioning

confidence: 61%

“…12 ; Nanotube from refs. 13,16,17 ; i-Motif from ref. 14 The 2D rendering of the computed results (Fig.…”

Section: Resultsmentioning

confidence: 99%

mentioning

confidence: 99%

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Mechanically rigid supramolecular assemblies formed from an Fmoc-guanine conjugated peptide nucleic acid

et al. 2019

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“…External forces are applied by multiple methods including optical tweezers, [117][118][119] magnetic tweezers, 78,120,121 electric elds, [122][123][124] ow elds, [125][126][127] and direct contact forces such as AFM. 74,128,129 These devices can add forces or torques precisely and be used for studying deformation mechanisms as well as mechanical properties.…”

Section: Reconguration Methodsmentioning

confidence: 99%

“…AFM is an excellent tool for this purpose, since it can apply forces on the DNA samples using its probe tip. 128,129,[163][164][165][166][167] The control of the force can be realized by adjusting the indentation depth of the tip. For example, nanoindentation was performed on selfassembled DNA crystals using AFM.…”

Section: Reviewmentioning

confidence: 99%

Mechanics of dynamic and deformable DNA nanostructures

Madhavacharyula

et al. 2023

Chem. Sci.

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Bio-macromolecular dynamic structures and functions, illustrated with DNA, antibody, and lipoprotein

Gou¹,

Jin²,

Chen³

et al. 2018

Chinese Phys. B

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Bio-macromolecules, such as proteins and nucleic acids, are the basic materials that perform fundamental activities required for life. Their structural heterogeneities and dynamic personalities are vital to understand the underlying functional mechanisms of bio-macromolecules. With the rapid development of advanced technologies such as single-molecule technologies and cryo-electron microscopy (cryo-EM), an increasing number of their structural details and mechanics properties at molecular level have significantly raised awareness of basic life processes. In this review, firstly the basic principles of single-molecule method and cryo-EM are summarized, to shine a light on the development in these fields. Secondly, recent progress driven by the above two methods are underway to explore the dynamic structures and functions of DNA, antibody, and lipoprotein. Finally, an outlook is provided for the further research on both the dynamic structures and functions of bio-macromolecules, through single-molecule method and cryo-EM combining with molecular dynamics simulations.

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Direct characterization of radial modulus of DNA nanotube by AFM nanoindentation

Cited by 3 publications

References 11 publications

Mechanically rigid supramolecular assemblies formed from an Fmoc-guanine conjugated peptide nucleic acid

Mechanically rigid supramolecular assemblies formed from an Fmoc-guanine conjugated peptide nucleic acid

Mechanics of dynamic and deformable DNA nanostructures

Bio-macromolecular dynamic structures and functions, illustrated with DNA, antibody, and lipoprotein

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