Supported membrane nanodevices are based on natural or artificial ion channels embedded in a lipid membrane deposited on a chip wafer. Membrane conductance is modulated by biorecognitive events, with the use of intrinsic binding sites of the ion channel or via artificial sites fused to the channel protein. Artificial ion gates are constructed by coupling a specific ligand for the analyte near the channel entrance or a site important to triggering channel conformation. The binding event leads to the closure of the ion channel or induces a conformational change of the channel, reducing the ion flux. The signal transduced from the device is the decrease in the ion flux-induced electron current at a silver-silver chloride electrode at ultimate single-molecule sensitivity. Among the natural ion channels, gramicidin A, a transport antibiotic, was found to be most suitable, and thus was used by AMBRI, Australia, to set up prototypes of membrane biochips, using self-association of the dimer. Covalent dimerization-based devices, developed by the Vienna group, make use of the down-regulation of the permanently open membrane-spanning bisgramicidine ion channel. The reactive group at the C-terminus, a hydroxy group, allows precise coupling of the analyte-binding moiety in gramicidin as well as bisgramicidin. The device is set up with bilayer membranes deposited on apertures of a hydrophobic frame structure produced via microlithography, facing an aqueous or hydro-gel micro-environment on both sides, constructing black lipid membranes or patch-clamp devices "on chip." The setup of the device needs gel membrane supports that allow membrane formation and contribute to the stability of the bilayer by exposure of functional groups that promote electrostatic interaction and formation of hydrogen bridges and enable the introduction of covalent spacers and anchors. Photo-cross-linked polyvinylpyrrolidone and polyacrylamide, electropolymerized polydiaminobenzene and coated agarose, as well as various chemical modifications of these polymers, were employed as membrane supports. With optimized assemblies, the membrane support did allow the formation of stable bilayer membranes, proved by "gigaseal" (electrical sealing with giga-ohm resistance) to be free of any point defects in the lipid assembly. Supports with and without hydrophilic and hydrophobic anchors were studied with reference to promoting the formation of a self-assembled membrane, to their electric resistance, and to the capability to insert functional ionophores. All components, including novel chemically engineered ion channels, novel amphiphilic lipids, a microlithographically designed chip, isolating polymer frames, and a hydrogel membrane support, are combined in the new bionanodevice. Sensitivity and specificity were proved, for example, with the use of an antibody-antigen couple down-regulating the ion flux through the membrane channel. Single ion channels incorporated in the supported lipid bilayer gave stable signals at an operational stability of several hours, which is already sufficient to test and screen for membrane receptors but still insufficient to use this device as a sensor for off-site application. Further optimization to increase operational and storage stability is done by a number of groups to allow a broad application of these devices.
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http://dx.doi.org/10.1166/jnn.2004.226 | DOI Listing |
Curr Opin Chem Biol
January 2025
Department of Biological Sciences, Indian Institute of Science Education and Research (IISER) Bhopal, Bhopal Bypass Road, Bhauri, Bhopal, 462066, Madhya Pradesh, India; Department of Chemistry, Indian Institute of Science Education and Research (IISER) Bhopal, Bhopal Bypass Road, Bhauri, Bhopal, 462066, Madhya Pradesh, India. Electronic address:
Animal venom contains ion channel-targeting peptide toxins that inflict paralysis or pain. The high specificity and potency of these toxins for their target ion channels provides enticing opportunities for their deployment as tools in channel biology. Mechanistic studies on toxin-mediated ion channel modulation have yielded landmark breakthroughs in our understanding of channel architectures and gating mechanisms.
View Article and Find Full Text PDFJ Chem Theory Comput
January 2025
Department of Physics, Clarendon Laboratory, University of Oxford, Oxford OX1 3PU, U.K.
Mechanisms of anion permeation within ion channels and nanopores remain poorly understood. Recent cryo-electron microscopy structures of the human bestrophin 1 Cl channel (hBest1) provide an opportunity to evaluate ion interactions predicted by molecular dynamics (MD) simulations against experimental observations. Here, we implement the fully polarizable force field AMOEBA in MD simulations on different conformations of hBest1.
View Article and Find Full Text PDFBiophys Chem
December 2024
Theoretical Molecular Science Laboratory, RIKEN Cluster for Pioneering Research, 2-1 Hirosawa, Wako, Saitama 351-0198, Japan; Computational Biophysics Research Group, RIKEN Center for Computational Science, 7-1-26 Minatojima-Minamimachi, Chuo-ku, Kobe, Hyogo 650-0047, Japan; Laboratory for Biomolecular Function Simulation, RIKEN Center for Biosystems Dynamics Research, 1-6-5 Minatojima-Minamimachi, Chuo-ku, Kobe, Hyogo 650-0047, Japan.
Membrane potential is essential in biological signaling and homeostasis maintained by voltage-sensitive membrane proteins. Molecular dynamics (MD) simulations incorporating membrane potentials have been extensively used to study the structures and functions of ion channels and protein pores. They can also be beneficial in designing and characterizing artificial ion channels and pores, which will guide further amino acid sequence optimization through comparison between the predicted models and experimental data.
View Article and Find Full Text PDFSci Immunol
January 2025
IDIBAPS Biomedical Research Institute, Barcelona, Spain.
Patient-derived NMDAR mAbs combined with single-particle cryo-electron microscopy reveal multiple GluN1 epitopes and distinct functional effects.
View Article and Find Full Text PDFSci Immunol
January 2025
Department of Pathology and Rogel Cancer Center, University of Michigan Medical School, Ann Arbor, MI 48109, USA.
The NLRP3 inflammasome plays a critical role in innate immunity and inflammatory diseases. NIMA-related kinase 7 (NEK7) is essential for inflammasome activation, and its interaction with NLRP3 is enhanced by K efflux. However, the mechanism by which K efflux promotes this interaction remains unknown.
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