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Forster resonance energy transfer

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https://www.readbyqxmd.com/read/28107944/lanthanide-to-quantum-dot-f%C3%A3-rster-resonance-energy-transfer-fret-application-for-immunoassay
#1
REVIEW
O A Goryacheva, N V Beloglazova, A M Vostrikova, M V Pozharov, A M Sobolev, I Yu Goryacheva
Förster resonance energy transfer (FRET) between lanthanide ion complexes (L) acting as donors and luminescent semiconductor quantum dots (QD) acting as acceptors is discussed in the terms of advantages and disadvantages for its application in immunoassay. L-QD-FRET is potentially a powerful tool that can be used to detect and confirm formation of immunocomplexes, but until now it had very limited practical analytical application. Therefore, the main aim of this review is to analyze all possibilities, advantages, and disadvantages of L-QD-FRET in immunoassay applications...
March 1, 2017: Talanta
https://www.readbyqxmd.com/read/28106411/construction-of-multichromophoric-spectra-from-monomer-data-applications-to-resonant-energy-transfer
#2
Aurélia Chenu, Jianshu Cao
We develop a model that establishes a quantitative link between the physical properties of molecular aggregates and their constituent building blocks. The relation is built on the coherent potential approximation, calibrated against exact results, and proven reliable for a wide range of parameters. It provides a practical method to compute spectra and transfer rates in multichromophoric systems from experimentally accessible monomer data. Applications to Förster energy transfer reveal optimal transfer rates as functions of both the system-bath coupling and intra-aggregate coherence...
January 6, 2017: Physical Review Letters
https://www.readbyqxmd.com/read/28096444/single-molecule-fret-rosetta-reveals-rna-structural-rearrangements-during-human-telomerase-catalysis
#3
Joseph W Parks, Kalli Kappel, Rhiju Das, Michael D Stone
Maintenance of telomeres by telomerase permits continuous proliferation of rapidly dividing cells, including the majority of human cancers. Despite its direct biomedical significance, the architecture of the human telomerase complex remains unknown. Generating homogeneous telomerase samples has presented a significant barrier to developing improved structural models. Here we pair single-molecule Förster resonance energy transfer (smFRET) measurements with Rosetta modeling to map the conformations of the essential telomerase RNA core domain within the active ribonucleoprotein...
February 2017: RNA
https://www.readbyqxmd.com/read/28093904/supramolecular-polymer-dot-ensemble-for-ratiometric-detection-of-lectins-and-targeted-delivery-of-imaging-agents
#4
Chang-Zheng Wang, Jia-Li Chen, Ying Tang, Yi Zang, Guo-Rong Chen, Tony D James, Jia Li, Changfeng Wu, Xiao-Peng He
A supramolecular, polymer-dot-based ensemble has been developed for the ratiometric detection of lectins and targeted delivery of glycoprobes. Self-assembly between a blue-emitting polymer dot and a red-emitting glycoprobe, results in an ensemble that shows red emission upon excitation of the polymer dot because of Förster resonance energy transfer. Resulting in ratiometric detection of lectins in buffer solution as well as targeted delivery of the glycoprobe to cells that highly express a sugar receptor. Unlike conventional systems where both the agent and vector are codelivered intracellularly, our ensemble developed here shows a receptor-controlled dissociation on the cell membrane...
January 19, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/28093840/a-unique-genetically-encoded-fret-pair-in-mammalian-cells
#5
Amanda L Mitchell, Partha Sarathi Addy, Melissa A Chin, Abhishek Chatterjee
Förster resonance energy transfer (FRET) between two suitable fluorophores is a powerful tool to monitor dynamic changes in protein structure in vitro and in vivo. The ability to genetically encode a FRET pair represents a convenient "labeling-free" strategy to incorporate them into target protein(s). Currently, the only genetically encoded FRET pairs available for use in mammalian cells use fluorescent proteins. However, their large size can lead to unfavorable perturbations, particularly when two of them are used at the same time...
January 17, 2017: Chembiochem: a European Journal of Chemical Biology
https://www.readbyqxmd.com/read/28092942/advances-in-structural-and-single-molecule-methods-for-investigating-dna-lesion-bypass-and-repair-polymerases
#6
Austin T Raper, Andrew J Reed, Varun V Gadkari, Zucai Suo
Innovative advances in X-ray crystallography and single-molecule biophysics have yielded unprecedented insight into the mechanisms of DNA lesion bypass and damage repair. Time-dependent X-ray crystallography has been successfully applied to view the bypass of 8-oxo-7,8-dihydro-2'-deoxyguanine (8-oxoG), a major oxidative DNA lesion, and the incorporation of the triphosphate form, 8-oxo-dGTP, catalyzed by human DNA polymerase β. Significant findings of these studies are highlighted here, and their contributions to the current mechanistic understanding of mutagenic translesion DNA synthesis (TLS) and base excision repair are discussed...
January 17, 2017: Chemical Research in Toxicology
https://www.readbyqxmd.com/read/28092053/sh2-domain-based-fret-biosensor-for-measuring-bcr-abl-activity-in-living-cml-cells
#7
Mari Fujioka, Yumi Asano, Shigeyuki Nakada, Yusuke Ohba
Fluorescent proteins (FPs) displaying distinct spectra have shed their light on a wide range of biological functions. Moreover, sophisticated biosensors engineered to contain single or multiple FPs, including Förster resonance energy transfer (FRET)-based biosensors, spatiotemporally reveal the molecular mechanisms underlying a variety of pathophysiological processes. However, their usefulness for applied life sciences has yet to be fully explored. Recently, our research group has begun to expand the potential of FPs from basic biological research to the clinic...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28076815/fluorescent-labeling-preserving-ocp-photoactivity-reveals-its-reorganization-during-the-photocycle
#8
Eugene G Maksimov, Nikolai N Sluchanko, Kirill S Mironov, Evgeny A Shirshin, Konstantin E Klementiev, Georgy V Tsoraev, Marcus Moldenhauer, Thomas Friedrich, Dmitry A Los, Suleyman I Allakhverdiev, Vladimir Z Paschenko, Andrei B Rubin
Orange carotenoid protein (OCP), responsible for the photoprotection of the cyanobacterial photosynthetic apparatus under excessive light conditions, undergoes significant rearrangements upon photoconversion and transits from the stable orange to the signaling red state. This is thought to involve a 12-Å translocation of the carotenoid cofactor and separation of the N- and C-terminal protein domains. Despite clear recent progress, the detailed mechanism of the OCP photoconversion and associated photoprotection remains elusive...
January 10, 2017: Biophysical Journal
https://www.readbyqxmd.com/read/28067802/stabilization-of-nucleosomes-by-histone-tails-and-by-fact-revealed-by-spfret-microscopy
#9
Maria E Valieva, Nadezhda S Gerasimova, Kseniya S Kudryashova, Anastasia L Kozlova, Mikhail P Kirpichnikov, Qi Hu, Maria Victoria Botuyan, Georges Mer, Alexey V Feofanov, Vasily M Studitsky
A correct chromatin structure is important for cell viability and is tightly regulated by numerous factors. Human protein complex FACT (facilitates chromatin transcription) is an essential factor involved in chromatin transcription and cancer development. Here FACT-dependent changes in the structure of single nucleosomes were studied with single-particle Förster resonance energy transfer (spFRET) microscopy using nucleosomes labeled with a donor-acceptor pair of fluorophores, which were attached to the adjacent gyres of DNA near the contact between H2A-H2B dimers...
January 6, 2017: Cancers
https://www.readbyqxmd.com/read/28067406/ninjurin1-assembles-into-a-homomeric-protein-complex-maintained-by-n-linked-glycosylation
#10
Sung-Jin Bae, Min Wook Shin, Ran Hee Kim, Dongyoon Shin, Taekwon Son, Hee-Jun Wee, Kyu-Won Kim
Ninjurin1 (Ninj1) is a cell surface protein known as a homophilic adhesion molecule. Previous studies have shown a trans-interaction of Ninj1 between immune cells and endothelial cells; however, little is known about Ninj1 modification and structure in the cis-interaction. We showed that Ninj1 assembles into a homomeric complex via a cis-interaction mediated by the intracellular region and N-glycosylation at Asn(60) . We identified cis-interaction between Ninj1 proteins using CFP- and YFP-tagged Ninj1 by Förster resonance energy transfer using a confocal microscope and fluorescence-activated cell sorter...
January 9, 2017: Journal of Cellular Biochemistry
https://www.readbyqxmd.com/read/28067372/selective-turn-on-and-modulation-of-resonant-energy-transfer-in-single-plasmonic-hybrid-nanostructures
#11
Łukasz Bujak, Tatsuya Ishii, Dharmendar Kumar Sharma, Shuzo Hirata, Martin Vacha
Förster resonant energy transfer (FRET) is a nonradiative process by which the energy of light absorbed by a donor molecule is transferred to an acceptor molecule over a distance of several nanometers. FRET plays a crucial role in photosynthesis and nature-inspired artificial light-harvesting systems that are being explored for use in energy conversion applications. Localized plasmons of metal nanoparticles can potentially lead to a significant increase of FRET efficiency and effective donor-acceptor distance...
January 9, 2017: Nanoscale
https://www.readbyqxmd.com/read/28066545/predicting-signatures-of-anisotropic-resonance-energy-transfer-in-dye-functionalized-nanoparticles
#12
Gabriel Gil, Stefano Corni, Alain Delgado, Andrea Bertoni, Guido Goldoni
Resonance energy transfer (RET) is an inherently anisotropic process. Even the simplest, well-known Förster theory, based on the transition dipole-dipole coupling, implicitly incorporates the anisotropic character of RET. In this theoretical work, we study possible signatures of the fundamental anisotropic character of RET in hybrid nanomaterials composed of a semiconductor nanoparticle (NP) decorated with molecular dyes. In particular, by means of a realistic kinetic model, we show that the analysis of the dye photoluminescence difference for orthogonal input polarizations reveals the anisotropic character of the dye-NP RET which arises from the intrinsic anisotropy of the NP lattice...
November 13, 2016: RSC Advances
https://www.readbyqxmd.com/read/28058420/sensitized-zno-nanorod-assemblies-to-detect-heavy-metal-contaminated-phytomedicines-spectroscopic-and-simulation-studies
#13
Damayanti Bagchi, Tuhin Kumar Maji, Samim Sardar, Peter Lemmens, Chinmoy Bhattacharya, Debjani Karmakar, Samir Kumar Pal
The immense pharmacological relevance of the herbal medicine curcumin including anti-cancer and anti-Alzheimer effects, suggests it to be a superior alternative to synthesised drugs. The diverse functionalities with minimal side effects intensify the use of curcumin not only as a dietary supplement but also as a therapeutic agent. Besides all this effectiveness, some recent literature reported the presence of deleterious heavy metal contaminants from various sources in curcumin leading to potential health hazards...
January 18, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28058293/quantification-of-small-molecule-protein-interactions-using-fret-between-tryptophan-and-the-pacific-blue-fluorophore
#14
Molly M Lee, Blake R Peterson
We report a new method to quantify the affinity of small molecules for proteins. This method is based on Förster resonance energy transfer (FRET) between endogenous tryptophan (Trp) residues and the coumarin-derived fluorophore Pacific Blue (PB). Tryptophan residues are frequently found in proteins near ligand-binding sites, making this approach potentially applicable to a wide range of systems. To improve access to PB, we developed a scalable multigram synthesis of this fluorophore, starting with inexpensive 2,3,4,5-tetrafluorobenzoic acid...
December 31, 2016: ACS Omega
https://www.readbyqxmd.com/read/28055118/fret-in-a-synthetic-flavin-and-bilin-binding-protein
#15
Julian Simon, Aba Losi, Kai-Hong Zhao, Wolfgang Gärtner
The last decade has seen development and application of a large number of novel fluorescence-based techniques that have revolutionized fluorescence microscopy in life sciences. Preferred tags for such applications are genetically encoded fluorescent proteins (FP), mostly derivatives of the green fluorescent protein (GFP). Combinations of FPs with wavelength-separated absorption/fluorescence properties serve as excellent tools for molecular interaction studies, e.g., protein-protein complexes or enzyme-substrate complexes, based on the FRET phenomenon (Förster resonance energy transfer)...
January 5, 2017: Photochemistry and Photobiology
https://www.readbyqxmd.com/read/28043995/simultaneous-imaging-of-multiple-cellular-events-using-high-accuracy-fluorescence-polarization-microscopy
#16
Sang-Yeob Kim, Yoshiyuki Arai, Tomomi Tani, Hirofumi Takatsuka, Yoshiharu Saito, Takayuki Kawashima, Shojiro Kawakami, Atsushi Miyawaki, Takeharu Nagai
Förster resonance energy transfer (FRET) has been widely used to design indicators for biomolecules. Conventional FRET-based indicators enable quantitative measurements of analyzes by calculating the ratio between donor and acceptor fluorophores. However, such 'hetero-FRET'-based indicators, which use multiple differently colored fluorophores, restrict the simultaneous use of other colors of fluorescent molecules. To overcome this problem, we developed a 'homo-FRET'-based Ca(2+) indicator, W-Cameleon, composed of two identical yellow fluorescent proteins...
January 1, 2017: Microscopy
https://www.readbyqxmd.com/read/28039847/environment-sensitive-fluorescent-analogue-of-biologically-active-oxazoles-differentially-recognizes-human-serum-albumin-and-bovine-serum-albumin-photophysical-and-molecular-modeling-studies
#17
Jyotirmay Maiti, Suman Biswas, Ankur Chaudhuri, Sandipan Chakraborty, Sibani Chakraborty, Ranjan Das
An environment sensitive fluorophore, 4-(5-(4-(dimethylamino)phenyl)oxazol-2-yl)benzoic acid (DMOBA), that closely mimics biologically active 2,5-disubstituited oxazoles has been designed to probe two homologous serum proteins, human serum albumin (HSA) and bovine serum albumin (BSA) by means of photophysical and molecular modeling studies. This fluorescent analogue exhibits solvent polarity sensitive fluorescence due to an intramolecular charge transfer in the excited state. In comparison to water, the steady state emission spectra of DMOBA in BSA is characterized by a greater blue shift (~10nm) and smaller Stokes' shift (~5980cm(-1)) in BSA than HSA (Stokes'shift~6600cm(-1)), indicating less polar and more hydrophobic environment of the dye in the former than the latter...
December 21, 2016: Spectrochimica Acta. Part A, Molecular and Biomolecular Spectroscopy
https://www.readbyqxmd.com/read/28038734/partially-assembled-nucleosome-structures-at%C3%A2-atomic-detail
#18
Georgy N Rychkov, Andrey V Ilatovskiy, Igor B Nazarov, Alexey V Shvetsov, Dmitry V Lebedev, Alexander Y Konev, Vladimir V Isaev-Ivanov, Alexey V Onufriev
The evidence is now overwhelming that partially assembled nucleosome states (PANS) are as important as the canonical nucleosome structure for the understanding of how accessibility to genomic DNA is regulated in cells. We use a combination of molecular dynamics simulation and atomic force microscopy to deliver, in atomic detail, structural models of three key PANS: the hexasome (H2A·H2B)·(H3·H4)2, the tetrasome (H3·H4)2, and the disome (H3·H4). Despite fluctuations of the conformation of the free DNA in these structures, regions of protected DNA in close contact with the histone core remain stable, thus establishing the basis for the understanding of the role of PANS in DNA accessibility regulation...
December 27, 2016: Biophysical Journal
https://www.readbyqxmd.com/read/28031320/tetraspanin-cd63-controls-basolateral-sorting-of-organic-cation-transporter-2-in-renal-proximal-tubules
#19
Ulf Schulze, Sabine Brast, Alexander Grabner, Christian Albiker, Beatrice Snieder, Svenja Holle, Eberhard Schlatter, Rita Schröter, Hermann Pavenstädt, Edwin Herrmann, Carsten Lambert, Gilles A Spoden, Luise Florin, Paul Saftig, Giuliano Ciarimboli
CD63 is a ubiquitously expressed member of the tetraspanin superfamily. Using a mating-based split-ubiquitin-yeast 2-hybrid system, pull-down experiments, total internal reflection fluorescence microscopy, Förster resonance energy transfer, and biotinylation assays, we found that CD63 interacts with human organic cation transporter 2 (hOCT2), which transports endogenous and exogenous substrates, such as neurotransmitters and drugs in several epithelial cells. CD63 overexpression affects cellular localization of hOCT2 expressed in human embryonic kidney (HEK)293 cells...
December 28, 2016: FASEB Journal: Official Publication of the Federation of American Societies for Experimental Biology
https://www.readbyqxmd.com/read/28029769/light-harvesting-and-amplified-energy-transfer-in-conjugated-polymer-nanoparticles
#20
Yifei Jiang, Jason McNeill
Conjugated polymer nanoparticles are a class of nanoparticles with many useful and interesting properties, including very high fluorescence brightness, excellent photostability, and sensing capabilities. They also exhibit interesting and potentially useful phenomena, such as highly efficient energy transfer, anomalous single particle blinking, and twinkling phenomena associated with polaron motion. As little as one dye molecule per nanoparticle can efficiently quench the fluorescence of hundreds of polymer chromophore units...
December 28, 2016: Chemical Reviews
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