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Forster resonance energy transfer

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https://www.readbyqxmd.com/read/28633196/tight-junction-strand-formation-by-claudin-10-isoforms-and-claudin-10a-10b-chimeras
#1
Susanne Milatz, Jörg Piontek, Caroline Hempel, Luca Meoli, Christoph Grohe, Anja Fromm, In-Fah M Lee, Rukeia El-Athman, Dorothee Günzel
Claudins are integral components of tight junctions (TJs) in epithelia and endothelia. When expressed in cell lines devoid of TJs, claudins are able to form TJ-like strands at contacts between adjacent cells. According to a current model of TJ strand formation, claudin protomers assemble in an antiparallel double row within the plasma membrane of each cell (cis-interaction) while binding to corresponding double rows from the neighboring cells (trans-interaction). Cis-interaction was proposed to involve two interfaces of the protomers' first extracellular segment (extracellular loop (ECL)1)...
June 20, 2017: Annals of the New York Academy of Sciences
https://www.readbyqxmd.com/read/28631482/carbohydrate-bis-acetal-based-substrates-as-tunable-fluorescence-quenched-probes-for-monitoring-exo-glycosidase-activity
#2
Samy Cecioni, David J Vocadlo
Tunable Förster resonance energy transfer (FRET)-quenched substrates are useful for monitoring the activity of various enzymes within their relevant physiological environments. Development of FRET-quenched substrates for exo-glycosidases, however, has been hindered by their constrained pocket-shaped active sites. Here we report the design of a new class of substrate that overcomes this problem. These Bis-Acetal-Based Substrates (BABS) bear a hemiacetal aglycon leaving group that tethers fluorochromes in close proximity, also positioning them distant from the active site pocket...
June 20, 2017: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/28630044/single-molecule-fret-analysis-discloses-the-dynamics-of-the-dna-topoisomerase-ii-top2-interaction-in-the-presence-of-top2-targeting-agents
#3
Wan-Chen Huang, Chun-Ying Lee, Tao-Shih Hsieh
Topoisomerases play crucial roles in DNA replication, transcription, and recombination. For instance, topoisomerase II (Top2) is critically important for resolving DNA tangles during cell division, and as such, it is a broad anticancer drug target. Top2 regulates DNA topology by transiently breaking one double stranded DNA molecule (cleavage), allowing a second double strand to pass through the opened DNA gate (opening), and then closing the gate by rejoining the broken ends. Drugs that modulate Top2 catalysis may therefore affect enzymatic activity at several different steps...
June 19, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28613885/towards-complete-sequence-flexibility-of-nucleic-acid-base-analogue-fret
#4
Moa Sandberg Wranne, Anders Foller Füchtbauer, Blaise Dumat, Mattias Sven Risto Bood, Afaf H El-Sagheer, Tom Brown, Henrik Gradén, Morten Grøtli, L Marcus Wilhelmsson
Förster resonance energy transfer (FRET) using fluorescent base analogues is a powerful means of obtaining high-resolution nucleic acid structure and dynamics information that favorably complements techniques such as NMR and X-ray crystal-lography. Here we expand the base-base FRET repertoire with an adenine analogue FRET-pair. Phosphoramidite-protected quadracyclic 2'-deoxyadenosine analogues qAN1 (donor) and qAnitro (acceptor) were synthesized and incorporated into DNA by a generic, reliable, and high-yielding route, and both constitute excellent adenine analogues...
June 14, 2017: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/28612865/esipt-and-fret-probes-for-monitoring-nanoparticle-polymer-coating-stability
#5
Julio C Azcárate, Sebastián A Díaz, Jonathan A Fauerbach, Florencia Gillanders, Aldo A Rubert, Elizabeth A Jares-Erijman, Thomas M Jovin, Mariano H Fonticelli
Coating strategies of inorganic nanoparticles (NPs) can provide properties unavailable to the NP core alone, such as targeting, specific sensing, and increased biocompatibility. Non-covalent amphiphilic NP capping polymers function via hydrophobic interactions with surface ligands and are extensively used to transfer NPs to aqueous media. For applications of coated NPs as actuators (sensors, markers, or for drug delivery) in a complex environment, such as biological systems, it is important to achieve a deep understanding of the factors affecting coating stability and behavior...
June 14, 2017: Nanoscale
https://www.readbyqxmd.com/read/28609710/sense-and-sensitivity-in-bioprocessing-detecting-cellular-metabolites-with-biosensors
#6
REVIEW
Linda Dekker, Karen M Polizzi
Biosensors use biological elements to detect or quantify an analyte of interest. In bioprocessing, biosensors are employed to monitor key metabolites. There are two main types: fully biological systems or biological recognition coupled with physical/chemical detection. New developments in chemical biosensors include multiplexed detection using microfluidics. Synthetic biology can be used to engineer new biological biosensors with improved characteristics. Although there have been few biosensors developed for bioprocessing thus far, emerging trends can be applied in the future...
June 10, 2017: Current Opinion in Chemical Biology
https://www.readbyqxmd.com/read/28604367/ultrafast-emission-decay-with-high-emission-efficiency-of-quantum-dots-in-plasmonic-dielectric-metasubstrates
#7
Waylin J Wing, Seyed M Sadeghi, Rithvik R Gutha
We report on the ultrafast decay of quantum dots that reaches nearly 430 ps without reduction in the emission intensity when near a metasubstrate of simple geometry. By implementing a layered structure of amorphous silicon sandwiched between two gold layers, the balance between plasmonic near field enhancement and energy transfer of the quantum dots has been shifted. This is achieved by tailoring the amount of Förster resonance energy transfer (FRET) to the top Au layer and plasmonic near field enhancement by the bottom Au layer...
June 12, 2017: Journal of Physics. Condensed Matter: An Institute of Physics Journal
https://www.readbyqxmd.com/read/28603969/elucidating-surface-ligand-dependent-kinetic-enhancement-of-proteolytic-activity-at-surface-modified-quantum-dots
#8
Sebastián A Díaz, Soumyo Sen, Kelly Boeneman Gemmill, Carl W Brown, Eunkeu Oh, Kimihiro Susumu, Michael H Stewart, Joyce C Breger, Guillermo Lasarte Aragonés, Lauren D Field, Jeffrey R Deschamps, Petr Král, Igor L Medintz
Combining biomolecules such as enzymes with nanoparticles has much to offer for creating next generation synergistically functional bionanomaterials. However, almost nothing is known about how these two disparate components interact at this critical biomolecular-materials interface to give rise to improved activity and emergent properties. Here we examine how the nanoparticle surface can influence and increase localized enzyme activity using a designer experimental system consisting of trypsin proteolysis acting on peptide-substrates displayed around semiconductor quantum dots (QDs)...
June 12, 2017: ACS Nano
https://www.readbyqxmd.com/read/28596233/adaptable-interaction-between-aquaporin-1-and-band-3-reveals-a-potential-role-of-water-channel-in-blood-co2-transport
#9
Kate Hsu, Ting-Ying Lee, Ammasi Periasamy, Fu-Jen Kao, Li-Tzu Li, Chuang-Yu Lin, Hui-Ju Lin, Marie Lin
Human CO2 respiration requires rapid conversion between CO2 and HCO3(-) Carbonic anhydrase II facilitates this reversible reaction inside red blood cells, and band 3 [anion exchange (AE)-1] provides a passage for HCO3(-) flux across the cell membrane. These 2 proteins are core components of the CO2 transport metabolon. Intracellular H2O is necessary for CO2/HCO3(-) conversion. However, abundantly expressed aquaporin (AQP)-1 in erythrocytes is thought not to be part of band 3 complexes or the CO2 transport metabolon...
June 8, 2017: FASEB Journal: Official Publication of the Federation of American Societies for Experimental Biology
https://www.readbyqxmd.com/read/28594477/azo-based-fluorogenic-probes-for-biosensing-and-bioimaging-recent-advances-and-upcoming-challenges
#10
Anthony Romieu, Arnaud Chevalier, Pierre-Yves Renard
The use of non-fluorescent azo dyes as dark quenchers in activatable optical bioprobes based on Förster resonance energy transfer (FRET) mechanism and designed to target a wide range of enzymes, has been well established for over two decades. The key value of the azo moiety (-N=N-) to also act as an efficient "ON-OFF" switch of fluorescence once introduced within the core structure of conventional organic-based fluorophores (mainly fluorescent aniline derivatives) has been recently exploited in the developement of alternative reaction-based small-molecule probes based on the "pro-fluorescence" concept...
June 8, 2017: Chemistry, An Asian Journal
https://www.readbyqxmd.com/read/28589959/corrigendum-a-dark-green-fluorescent-protein-as-an-acceptor-for-measurement-of-f%C3%A3-rster-resonance-energy-transfer
#11
Hideji Murakoshi, Akihiro C E Shibata, Yoshihisa Nakahata, Junichi Nabekura
This corrects the article DOI: 10.1038/srep15334.
June 7, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28582731/fret-based-glucose-imaging-identifies-glucose-signalling-in-response-to-biotic-and-abiotic-stresses-in-rice-roots
#12
Qingdong Zhu, Li Wang, Qianli Dong, Shu Chang, Kexin Wen, Shenghua Jia, Zhilin Chu, Hanmeng Wang, Ping Gao, Heping Zhao, Shengcheng Han, Yingdian Wang
Glucose is the primary energy provider and the most important sugar-signalling molecule, regulating metabolites and modulating gene expression from unicellular yeast to multicellular plants and animals. Therefore, monitoring intracellular glucose levels temporally and spatially in living cells is an essential step for decoding the glucose signalling in response to biotic and abiotic stresses. In this study, the genetically encoded FRET (Förster resonance energy transfer) nanosensors, FLIPglu-2μ∆13 and FLIPglu-600μΔ13, were used to measure cytosolic glucose dynamics in rice plants...
May 20, 2017: Journal of Plant Physiology
https://www.readbyqxmd.com/read/28582611/dynamic-dna-origami-device-for-measuring-compressive-depletion-forces
#13
Michael W Hudoba, Yi Luo, Angelita Zacharias, Michael G Poirier, Carlos E Castro
The ability to self-assemble nanodevices with programmed structural dynamics that can sense and respond to the local environment could enable transformative applications in fields including molecular robotics, nanomanufacturing, and nanomedicine. The responsive function of biomolecules is often driven by alterations in conformational distributions mediated by highly sensitive interactions with the local environment. Here, we mimic this approach by engineering inherent nanoscale structural dynamics (nanodynamics) into a DNA device that exhibits a distribution of conformations including two stable states separated by a transition state where the energy barrier height is on the scale of the thermal energy, kBT = 4...
June 9, 2017: ACS Nano
https://www.readbyqxmd.com/read/28580591/the-human-guanylate-binding-proteins-hgbp-1-and-hgbp-5-cycle-between-monomers-and-dimers-only
#14
Semra Ince, Miriam Kutsch, Sergii Shydlovskyi, Christian Herrmann
Belonging to the dynamin superfamily of large GTPases, human guanylate binding proteins comprise a family of seven isoforms (hGBP-1 to hGBP-7) which are strongly upregulated in response to interferon-γ and other cytokines. Accordingly, several hGBPs are found to exhibit various cellular functions encompassing inhibitory effects on cell proliferation, tumor suppression as well as antiviral and antibacterial activity, however, their mechanism of action is only poorly understood. Often, cellular functions of dynamin related proteins are closely linked to their capability to form nucleotide-dependent oligomers, a feature which also applies to hGBP-1 and hGBP-5...
June 5, 2017: FEBS Journal
https://www.readbyqxmd.com/read/28573592/protein-data-bank-pdb-the-single-global-macromolecular-structure-archive
#15
Stephen K Burley, Helen M Berman, Gerard J Kleywegt, John L Markley, Haruki Nakamura, Sameer Velankar
The Protein Data Bank (PDB)--the single global repository of experimentally determined 3D structures of biological macromolecules and their complexes--was established in 1971, becoming the first open-access digital resource in the biological sciences. The PDB archive currently houses ~130,000 entries (May 2017). It is managed by the Worldwide Protein Data Bank organization (wwPDB; wwpdb.org), which includes the RCSB Protein Data Bank (RCSB PDB; rcsb.org), the Protein Data Bank Japan (PDBj; pdbj.org), the Protein Data Bank in Europe (PDBe; pdbe...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28570518/high-precision-fret-at-single-molecule-level-for-biomolecule-structure-determination
#16
Junyan Ma, Inna S Yanez-Orozco, Soheila Rezaei Adariani, Drew Dolino, Vasanthi Jayaraman, Hugo Sanabria
A protocol on how to perform high-precision interdye distance measurements using Förster resonance energy transfer (FRET) at the single-molecule level in multiparameter fluorescence detection (MFD) mode is presented here. MFD maximizes the usage of all "dimensions" of fluorescence to reduce photophysical and experimental artifacts and allows for the measurement of interdye distance with an accuracy up to ~1 Å in rigid biomolecules. This method was used to identify three conformational states of the ligand-binding domain of the N-methyl-D-aspartate (NMDA) receptor to explain the activation of the receptor upon ligand binding...
May 13, 2017: Journal of Visualized Experiments: JoVE
https://www.readbyqxmd.com/read/28570043/fabrication-of-polymeric-micelles-with-aggregation-induced-emission-and-forster-resonance-energy-transfer-for-anticancer-drug-delivery
#17
Na Hao, Changzhen Sun, Zhengfei Wu, Long Xu, Wenxia Gao, Jun Cao, Li Li, Bin He
With the aim of obtaining effective cancer therapy with simultaneous cellular imaging, dynamic drug-release monitoring, and chemotherapeutic treatment, a polymeric micelle with aggregation-induced emission (AIE) imaging and a Forster resonance energy transfer (FRET) effect was fabricated as the drug carrier. An amphiphilic conjugate of 1H-pyrrole-1-propanoicacid (MAL)-poly(ethylene glycol) (PEG)-Tripp-bearing AIE molecules were synthesized and self-assembled into micelles to load the anticancer drug doxorubicin (DOX)...
June 15, 2017: Bioconjugate Chemistry
https://www.readbyqxmd.com/read/28567653/the-use-of-fret-flim-to-study-proteins-interacting-with-plant-receptor-kinases
#18
Stefanie Weidtkamp-Peters, Yvonne Stahl
The investigation of protein interactions in living plant tissue has become of increasing importance in recent years. A high spatial and temporal resolution for the observation of in vivo protein interaction is needed, e.g., in order to follow changes of plant receptor kinase interactions and complex formation over time. In vivo fluorescence or Förster resonance energy transfer (FRET) measurements allow for detailed analyses of interacting proteins in their natural environment at a subcellular level. Especially FRET-FLIM (fluorescence lifetime imaging microscopy) measurements provide an extremely powerful and reliable tool meeting the demands for investigating in vivo protein interaction quantitatively and with high precision...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28564579/lipid-membranes-catalyse-the-fibril-formation-of-the-amyloid-%C3%AE-1-42-peptide-through-lipid-fibril-interactions-that-reinforce-secondary-pathways
#19
David J Lindberg, Emelie Wesén, Johan Björkeroth, Sandra Rocha, Elin K Esbjörner
Alzheimer's disease is associated with the aggregation of amyloid-β (Aβ) peptides into oligomers and fibrils. Herein we explore how model lipid membranes modulate the rate and mechanisms of Aβ(1-42) self-assembly, in order to shed light on how this pathological reaction, may occur in the lipid-rich environments that this peptide encounters in the brain. Using a combination of in vitro biophysical experiments and theoretical approaches, we show that zwitterionic lipid vesicles accelerate the Aβ(1-42) fibril growth rate by interacting specifically with the growing fibrils...
May 28, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28562043/far-zone-resonant-energy-transfer-in-x-ray-photoemission-as-a-structure-determination-tool
#20
Denis Céolin, Jean-Pascal Rueff, Andrey Zimin, Paul Morin, Victor Kimberg, Sergey Polyutov, Hans Ågren, Faris Gel'mukhanov
Near-zone Förster resonant energy transfer is the main effect responsible for excitation energy flow in the optical region and is frequently used to obtain structural information. In the hard X-ray region, the Förster law is inadequate because the wavelength is generally shorter than the distance between donors and acceptors; hence, far-zone resonant energy transfer (FZRET) becomes dominant. We demonstrate the characteristics of X-ray FZRET and its fundamental differences with the ordinary near-zone resonant energy-transfer process in the optical region by recording and analyzing two qualitatively different systems: high-density CuO polycrystalline powder and SF6 diluted gas...
June 15, 2017: Journal of Physical Chemistry Letters
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