Translocation of double-stranded DNA through membrane-adapted phi29 motor protein nanopores

Wendell, David; Peng, Jing; Geng, Jia; Subramaniam, Varuni; Lee, Tae Jin; Montemagno, Carlo; Guo, Peixuan

doi:10.1038/nnano.2009.259

Cited by 257 publications

(376 citation statements)

References 46 publications

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“…Knowledge generated from such studies not only is useful to the understanding of biological pore formation but also helps create materials with potential applications ranging from single-molecule detection of DNAs and RNAs 8À14 to drug delivery. 15 Crown ethers and open chain compounds, which worked extremely well for ion channels, 16À21 normally are too flexible for nanopore formation. To keep the pore open, the structure must be able to withstand the external membrane pressure when incorporated into a bilayer.…”

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confidence: 99%

Translocation of Hydrophilic Molecules across Lipid Bilayers by Salt-Bridged Oligocholates

Cho

Zhao

2011

Langmuir

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Macrocyclic oligocholates were found in a previous work (Cho, H.; Widanapathirana, L.; Zhao, Y. J. Am. Chem. Soc.2011, 133, 141−147) to stack on top of one another in lipid membranes to form nanopores. Pore formation was driven by a strong tendency of the water molecules in the interior of the amphiphilic macrocycles to aggregate in a nonpolar environment. In this work, cholate oligomers terminated with guanidinium and carboxylate groups were found to cause efflux of hydrophilic molecules such as glucose, maltotriose, and carboxyfluorescein (CF) from POPC/POPG liposomes. The cholate trimer outperformed other oligomers in the transport. Lipid-mixing assays and dynamic light scattering ruled out fusion as the cause of leakage. The strong dependence on chain length argues against random intermolecular aggregates as the active transporters. The efflux of glucose triggered by these compounds increased significantly when the bilayers contained 30 mol % cholesterol. Hill analysis suggested that the active transporter consisted of four molecules. The oligocholates were proposed to fold into "noncovalent macrocycles" by the guanidinium−carboxylate salt bridge and stack on top of one another to form similar transmembrane pores as their covalent counterparts. Disciplines Chemistry CommentsReprinted ( Synthetic transmembrane pores with an inner diameter of 1 nm or larger have attracted a great deal of attention in recent years. 1,2 Part of the motivation comes from the fact that their biological congeners, membrane-associated pore-forming proteins, are involved in critical functions such as signaling, metabolism, and bacterial or viral infection. 3À7 Since it is notoriously difficult to obtain detailed structural information for complex membrane proteins, chemists have sought to construct simpler biomimetic nanopores and study their behavior under more easily controlled conditions. Knowledge generated from such studies not only is useful to the understanding of biological pore formation but also helps create materials with potential applications ranging from single-molecule detection of DNAs and RNAs 8À14 to drug delivery. 15 Crown ethers and open chain compounds, which worked extremely well for ion channels, 16À21 normally are too flexible for nanopore formation. To keep the pore open, the structure must be able to withstand the external membrane pressure when incorporated into a bilayer. 22 Despite the significant efforts devoted to synthetic nanopores, limited designs exist currently. An early example was Ghadiri's cyclic D/L-peptides, which self-assembled into transmembrane pores large enough for glucose and glutamic acid to pass through. 23,24 In recent years, the β-barrel pores constructed from oligo(phenylene) derivatives by Matile and coworkers 25À27 proved particularly versatile and useful in many applications including sensing 26 and catalysis. 27 Other examples include the porphyrin-based nanopores by Satake and Kobuke, 28 Gong's π-stacked aromatic heterocycles, 29 the metal-coordinated nanopores by Fy...

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confidence: 99%

Translocation of Hydrophilic Molecules across Lipid Bilayers by Salt-Bridged Oligocholates

Cho

Zhao

2011

Langmuir

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“…To satisfy specific application requirements, various materials such as biological, [15] inorganic, [16] organic, [17] and composite materials [18] have been used to fabricate artificial nanochannels. Currently, nanochannels with diverse shapes and structures can be obtained using different techniques and Smart bioinspired nanochannels exhibiting ion-transport properties similar to biological ion channels have attracted extensive attention.…”

Section: Materials and Techniquesmentioning

confidence: 99%

Smart Bioinspired Nanochannels and their Applications in Energy‐Conversion Systems

Fan

Liu

et al. 2017

Advanced Materials

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materials. For example, nanochannels fab ricated in elastic materials can respond to an applied pressure, [4] and conical nanochannels in poly(ethylene tereph thalate) (PET) membranes can respond to pH. [5] Thus, it is convenient to achieve simple responsive properties by directly using responsive materials to construct the nano channels. The second route is an indirect method, where functional molecules and materials are modified onto the inner surfaces of nanochannels. This method can change the physical and chemical properties of nanochannels to make the system more intelligent. [6] Smart bioinspired nano channels with different shapes and compositions have been fabri cated, and these nanochannels can respond to various stimuli, such as pH, [7] light, [8] temperature, [9] specific ions, [10] and mole cules. [11] Compared with their fragile biological counterparts, smart bioinspired nanochannels possess excellent mechanical robustness, controllable geometry, tunable surface properties, and good chemical stability. [12] These advantages make them useful for many potential applications, ranging from molecular filters to biosensors to energy conversion devices. [13] Smart bioinspired nanochannels not only provide a basic research platform to simulate the ion transport process in living bodies, but also boost the generation of energy conver sion devices. In nature, ion channels can be used as switches to regulate mass transport and energy conversion. Learning from nature, numerous energy conversion systems based on artificial ion channels have been devised, [14] which are of great significance for the development of sustainable energy. Here, we summarize recent advances in the fabrication of smart bioinspired nanochannels and highlight their applications in energy conversion systems. Recent Advances in the Fabrication of Smart Bioinspired Nanochannels Materials and TechniquesThe fragility and instability of biological ion channels have motivated the development of smart bioinspired nanochan nels. To satisfy specific application requirements, various materials such as biological, [15] inorganic, [16] organic, [17] and composite materials [18] have been used to fabricate artificial nanochannels. Currently, nanochannels with diverse shapes and structures can be obtained using different techniques and Smart bioinspired nanochannels exhibiting ion-transport properties similar to biological ion channels have attracted extensive attention. Like ion channels in nature, smart bioinspired nanochannels can respond to various stimuli, which lays a solid foundation for mass transport and energy conversion. Fundamental research into smart bioinspired nanochannels not only furthers understanding of life processes in living bodies, but also inspires researchers to construct smart nanodevices to meet the increasing demand for the use of renewable resources. Here, a brief summary of recent research progress regarding the design and preparation of smart bioinspired nanochannels is presented. Moreover, representative applications ...

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“…This is suitable for sensing and sequencing of single-stranded DNA, RNA and unfolded protein chains [23] but impedes the sensing of proteins in their native folded state or even double-stranded DNA. The search for larger diameter biological nanopores that possess tunable diameters is ongoing [24].…”

Section: Nanoporesmentioning

confidence: 99%

Controlling molecular transport through nanopores

Keyser

2011

J. R. Soc. Interface.

173

191

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Nanopores are emerging as powerful tools for the detection and identification of macromolecules in aqueous solution. In this review, we discuss the recent development of active and passive controls over molecular transport through nanopores with emphasis on biosensing applications. We give an overview of the solutions developed to enhance the sensitivity and specificity of the resistive-pulse technique based on biological and solid-state nanopores.

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Translocation of double-stranded DNA through membrane-adapted phi29 motor protein nanopores

Cited by 257 publications

References 46 publications

Translocation of Hydrophilic Molecules across Lipid Bilayers by Salt-Bridged Oligocholates

Translocation of Hydrophilic Molecules across Lipid Bilayers by Salt-Bridged Oligocholates

Smart Bioinspired Nanochannels and their Applications in Energy‐Conversion Systems

Controlling molecular transport through nanopores

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