Mechanically Controlled Electron Transfer in a Single-Polypeptide Transistor

Sheu, Sheh Yi; Yang, Dah Yen

doi:10.1038/srep39792

Cited by 9 publications

(2 citation statements)

References 81 publications

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“…The natural extensions of our analysis would be, first, to investigate interfacial water vibrational spectroscopy and the effect of pH on biomolecules − and, second, to study in more detail the functionality of the surface hydration water electron conductance …”

Section: Discussionmentioning

confidence: 99%

Surface Topography Effects of Globular Biomolecules on Hydration Water

Sheu¹,

Liu²,

Zhou³

et al. 2019

J. Phys. Chem. B

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Hydration water serves as a microscopic manifestation of structural stability and functions of biomolecules. To develop bio-nanomaterials in applications, it is important to study how the surface topography and heterogeneity of biomolecules result in their diversity of the hydration dynamics and energetics. We here performed molecular dynamics simulations combined with the steered molecular dynamics and umbrella sampling to investigate the dynamics and escape process associated with the free energy change of water molecules close to a globular biomolecule, i.e., hemoglobin (Hb) and Gquadruplex DNA (GDNA). The residence time, power of long-time tail, and dipole relaxation time were found to display drastic changes within the averaged hydration shell of 3.0−5.0 Å. Compared with bulk water, in the inner hydration shell, the water dipole moment displays a slower relaxation process and is more oriented toward GDNA than toward Hb, forming a hedgehog-like structure when it surrounds GDNA. In particular, a spine water structure is observed in the GDNA narrow groove. The water isotope effect not only prolongs the dynamic time scales of libration motion in the inner hydration shell and the dipole relaxation processes in the bulk but also strengthens the DNA spine water structure. The potential of the mean force profile reflects the integrity of the hydration shell structure and enables us to obtain detailed insights into the structures formed by water, such as the caged H-bond network and the edge bridge structures; it also reveals that local hydration shell free energy (LHSFE) depends on H-bond rupture processes and ranges from 0.2 to 4.2 kcal/mol. Our results demonstrate that the surface topography of a biomolecule influences the integrity of the hydration shell structure and LHSFE. Our studies are able to identify various further applications in the areas of microfluid devices and nano-dewetting on bioinspired surfaces.

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Section: Discussionmentioning

confidence: 99%

Surface Topography Effects of Globular Biomolecules on Hydration Water

Sheu¹,

Liu²,

Zhou³

et al. 2019

J. Phys. Chem. B

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“…Next, to initiate the effective self-assembly by tuning the pH of growing solution, the functional group introduction on the surface of DNPs might be considered, which may also increase the charge transfer ability of G-DNWs 36 . On this way, Sheu, et al ., discussed about the electron transport ability of cysteamine in a single-polypeptide transistor studies 37 . Additionally, doping of S and N atoms on the graphitized nanodiamond surface were also boosted its electrocatalytic activity 29 .…”

Section: Introductionmentioning

confidence: 99%

An Affordable Wet Chemical Route to Grow Conducting Hybrid Graphite-Diamond Nanowires: Demonstration by A Single Nanowire Device

Shellaiah

Chen

Simon

et al. 2017

Sci Rep

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We report an affordable wet chemical route for the reproducible hybrid graphite-diamond nanowires (G-DNWs) growth from cysteamine functionalized diamond nanoparticles (ND-Cys) via pH induced self-assembly, which has been visualized through SEM and TEM images. Interestingly, the mechanistic aspects behind that self-assembly directed G-DNWs formation was discussed in details. Notably, above self-assembly was validated by AFM and TEM data. Further interrogations by XRD and Raman data were revealed the possible graphite sheath wrapping over DNWs. Moreover, the HR-TEM studies also verified the coexistence of less perfect sp2 graphite layer wrapped over the sp3 diamond carbon and the impurity channels as well. Very importantly, conductivity of hybrid G-DNWs was verified via fabrication of a single G-DNW. Wherein, the better conductivity of G-DNW portion L2 was found as 2.4 ± 1.92 × 10−6 mS/cm and revealed its effective applicability in near future. In addition to note, temperature dependent carrier transport mechanisms and activation energy calculations were reported in details in this work. Ultimately, to demonstrate the importance of our conductivity measurements, the possible mechanism behind the electrical transport and the comparative account on electrical resistivities of carbon based materials were provided.

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Quantum Logic Gates Based on DNAtronics, RNAtronics, and Proteintronics

Sheu

Hsu

Yang

2021

Advanced Intelligent Systems

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A quantum computer (QC) [1][2][3] implements quantum bits (qubits) and qudits [4] (e.g., qutrits [5] and ququarts [6] ) to conduct computations instead of a traditional digital computer built from a transistor in which a binary bit is represented by either 1 or 0. Based on the Church-Turing-Deutch principle, a computing machine conducts simulations of every physical process and behaves as a universal QC. [7][8][9] Unlike a classical bit, the basic unit of a qubit is the superposition c 0 j0i þ c 1 j1i of two qubit states, j0i and j1i, where c 0 and c 1 denote complex numbers. [10] However, the operation of a QC with a relatively large number of qubits for conducting universal computations has attracted considerable attention. [11] Using quantum algorithms such as Shor's algorithm, [12] a quantum many-body simulation [10] and Simon's algorithm, [13] a large-scale QC could tackle problems faster than a classical computer. Until now, present quantum algorithms have been implemented by superconducting flux qubits (D-wave systems), [14] nuclear magnetic resonance (NMR) techniques, [15,16] photonic QCs, [17] and ion-trap systems. [18,19] For NMR techniques, Shor's factorizing algorithm, [20] which uses seven qubits, has been applied. The qubits are encoded in mixed states, and the output is a result of an ensemble measurement. Hence, NMR QCs are not scalable. [21] For a trapped-ion QC, the qubits are stored in the electronic states of ions and are controllable in long-lived internal states, and their quantum states can be detected with a very high efficiency close to 100%. [19,22,23] These characteristics permit the manipulation of pure states to build a scalable and universal QC. [24] Nevertheless, no quantum logic gate has been executed with a subnano-scaled molecular transistor to date.Classical computers operate with a microprocessor that consists of semiconductor logic gates with electronic input and output signals of a binary digital nature. The output can be only one of the two states, on or off, corresponding to logic 1 or 0, respectively. Consequently, the signal pattern can be described by a truth table based on Boolean algebra. [25] This critical feature in constructing computers could be conducted by a single-molecule transistor as a future classical computer. [26,27] However, accomplishing concerted arrays of molecular transistors remains an intrinsic challenge. [28,29] Recently, several experiments have shown the feasibility of conducting computations at the molecular level. For example, DNA is a reliable biomolecule and can be used to build molecular computation systems; however, it was used as a classical liquid computer to solve the Hamiltonian path problem. [30] DNA-based logic gates [25,31] have been designed by deoxyribozyme ligases. [32,33] It is possible to integrate the logic gates into simple circuits using a series of deoxyribozyme ligases communicating via a deoxyribozyme phosphodiesterase. [28] Meanwhile, NOT and two-input AND gates were integrated into an INHIBIT logic gate, and signal trans...

show abstract

Mechanically Controlled Electron Transfer in a Single-Polypeptide Transistor

Cited by 9 publications

References 81 publications

Surface Topography Effects of Globular Biomolecules on Hydration Water

Surface Topography Effects of Globular Biomolecules on Hydration Water

An Affordable Wet Chemical Route to Grow Conducting Hybrid Graphite-Diamond Nanowires: Demonstration by A Single Nanowire Device

Quantum Logic Gates Based on DNAtronics, RNAtronics, and Proteintronics

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