Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Function-Oriented Synthesis of a Didesmethyl Triazacryptand Analogue for Fluorescent Potassium Ion Sensing.

ABSTRACT: Triazacryptand (TAC)-based fluorescent K+ sensors have broad biomedical utility, yet their advancement has been hindered because of their challenging synthesis. Herein, an efficient synthesis is reported that delivers a didesmethyl tri-azacryptand (ddTAC) K+ sensor in twofold fewer steps and ninefold higher overall yield than the original TAC synthesis. Our synthesis utilizes a C-O dianionic oxidative macrocyclization and reports new examples of aminoarylations and a microwave route to xanthythilium chromophores. The K+ sensitivity and selectivity of the ddTAC-based sensor are comparable to the TAC-based sensor.

SUBMITTER: Carpenter RD

PROVIDER: S-EPMC3729919 | biostudies-literature | 2011 Mar

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

Function-Oriented Synthesis of a Didesmethyl Triazacryptand Analogue for Fluorescent Potassium Ion Sensing.

Carpenter Richard D RD Verkman Alan S AS

European journal of organic chemistry 20110301 7

Triazacryptand (TAC)-based fluorescent K<sup>+</sup> sensors have broad biomedical utility, yet their advancement has been hindered because of their challenging synthesis. Herein, an efficient synthesis is reported that delivers a didesmethyl tri-azacryptand (ddTAC) K<sup>+</sup> sensor in twofold fewer steps and ninefold higher overall yield than the original TAC synthesis. Our synthesis utilizes a C-O dianionic oxidative macrocyclization and reports new examples of aminoarylations and a microw ...[more]

PMID: 23914138

Similar Datasets

Genetically encoded fluorescent indicators for imaging intracellular potassium ion concentration.

Project description:Potassium ion (K+) homeostasis and dynamics play critical roles in biological activities. Here we describe three genetically encoded K+ indicators. KIRIN1 (potassium (K) ion ratiometric indicator) and KIRIN1-GR are Förster resonance energy transfer (FRET)-based indicators with a bacterial K+ binding protein (Kbp) inserting between the fluorescent protein FRET pairs mCerulean3/cp173Venus and Clover/mRuby2, respectively. GINKO1 (green indicator of K+ for optical imaging) is a single fluorescent protein-based K+ indicator constructed by insertion of Kbp into enhanced green fluorescent protein (EGFP). These indicators are suitable for detecting K+ at physiologically relevant concentrations in vitro and in cells. KIRIN1 enabled imaging of cytosolic K+ depletion in live cells and K+ efflux and reuptake in cultured neurons. GINKO1, in conjunction with red fluorescent Ca2+ indicator, enable dual-color imaging of K+ and Ca2+ dynamics in neurons and glial cells. These results demonstrate that KIRIN1 and GINKO1 are useful tools for imaging intracellular K+ dynamics.

| S-EPMC6331434 | biostudies-literature

Synthesis and polymerase activity of a fluorescent cytidine TNA triphosphate analogue.

Project description:Threose nucleic acid (TNA) is an artificial genetic polymer capable of undergoing Darwinian evolution to produce aptamers with affinity to specific targets. This property, coupled with a backbone structure that is refractory to nuclease digestion, makes TNA an attractive biopolymer system for diagnostic and therapeutic applications. Expanding the chemical diversity of TNA beyond the natural bases would enable the development of functional TNA molecules with enhanced physiochemical properties. Here, we describe the synthesis and polymerase activity of a fluorescent cytidine TNA triphosphate analogue (1,3-diaza-2-oxo-phenothiazine, tCfTP) that maintains Watson-Crick base pairing with guanine. Polymerase-mediated primer-extension assays reveal that tCfTP is efficiently added to the growing end of a TNA primer. Detailed kinetic assays indicate that tCfTP and tCTP have comparable rates for the first nucleotide incorporation step (kobs1). However, addition of the second nucleotide (kobs2) is 700-fold faster for tCfTP than tCTP due the increased effects of base stacking. Last, we found that TNA replication using tCfTP in place of tCTP exhibits 98.4% overall fidelity for the combined process of TNA transcription and reverse transcription. Together, these results expand the chemical diversity of enzymatically generated TNA molecules to include a hydrophobic base analogue with strong fluorescent properties that is compatible with in vitro selection.

| S-EPMC5449585 | biostudies-literature

Synthesis of a sensitive and selective potassium-sensing fluoroionophore.

Project description:An efficient synthesis is reported that delivers in 5 steps and 52% overall yield a new structurally simplified fluorescent K(+) sensor with improved K(+) sensitivity and selectivity over existing K(+) sensors. The synthesis procedure utilizes a new template-directed oxidative C-N bond-forming macrocyclization reaction and reports new approaches to Pd(0), Sandmeyer-like and metal-free aminoarylations, as well as organotitanium additions to vinylogous sulfonates.

| S-EPMC3315285 | biostudies-literature

Acid sensing ion channels regulate neuronal excitability by inhibiting BK potassium channels.

Project description:Acid sensing ion channels (ASICs), Ca(2+) and voltage-activated potassium channels (BK) are widely present throughout the central nervous system. Previous studies have shown that when expressed together in heterologous cells, ASICs inhibit BK channels, and this inhibition is relieved by acidic extracellular pH. We hypothesized that ASIC and BK channels might interact in neurons, and that ASICs may regulate BK channel activity. We found that ASICs inhibited BK currents in cultured wild-type cortical neurons, but not in ASIC1a/2/3 triple knockout neurons. The inhibition in the wild-type was partially relieved by a drop in extracellular pH to 6. To test the consequences of ASIC-BK interaction for neuronal excitability, we compared action potential firing in cultured cortical neurons from wild-type and ASIC1a/2/3 null mice. We found that in the knockout, action potentials were narrow and exhibited increased after-hyperpolarization. Moreover, the excitability of these neurons was significantly increased. These findings are consistent with increased BK channel activity in the neurons from ASIC1a/2/3 null mice. Our data suggest that ASICs can act as endogenous pH-dependent inhibitors of BK channels, and thereby can reduce neuronal excitability.

| S-EPMC3488431 | biostudies-literature

Potassium ion-selective fluorescent and pH independent nanosensors based on functionalized polyether macrocycles.

Project description:We present here a new family of pH insensitive ion-selective optical sensors based on emulsified nanospheres containing densely functionalized 15-, 16-, 18- and 20-membered pyreneamide derivatives. These compounds were successfully synthesized by the reaction of α-diazo-β-ketoesters with cyclic ethers of the desired size in the presence of dirhodium complexes followed by a stereo-selective tandem amidation-transposition process and characterized by 1H-NMR, 13C-NMR, IR, HR-ESI-MS, UV-VIS and fluorescence spectroscopy and potentiometry. Their unique structure consisting of a crown ether ring linked to pyrene moieties through amide groups exhibits on-off switchable behavior upon binding of specific cations and allows one to incorporate these chemosensors as fluorescent ionophores into ion-exchange nanospheres. The nanosphere matrix is composed of bis(2-ethylhexyl)sebacate (DOS), poly(ethylene glycol) (PEG), sodium tetrakis 3,5-bis(trifluoromethyl)phenyl borate and pyreneamide functionalized 18-crown-6 ether (18C6). These optode nanoparticles exhibit a strong affinity to the potassium cation over other metal ions up to the millimolar concentration range in an exhaustive detection mode. The logarithmic complex formation constant was determined using the segmented sandwich membrane method and was found to be 6.5 ± 0.3 (SD) in PVC membrane plasticized with NPOE and 5.3 ± 0.3 (SD) in DOS with a 1 : 1 complex stoichiometry. The nanosensors were characterized in broad range of pH from 4 to 10 and the same linear calibration curves were obtained in the concentration range from 10-7 M to 10-5 M and thus the pH dependent response was largely overcome. These nanosensors are sufficiently stable, simple to prepare, exhibit a rapid response and their nanoscale size makes them suitable for sensing purposes in samples of limited dimensions.

| S-EPMC5952882 | biostudies-literature

A Fluorescent Teixobactin Analogue.

Project description:This report describes the first synthesis and application of a fluorescent teixobactin analogue that exhibits antibiotic activity and binds to the cell walls of Gram-positive bacteria. The teixobactin analogue, Lys(Rhod)9,Arg10-teixobactin, has a fluorescent tag at position 9 and an arginine in place of the natural allo-enduracididine residue at position 10. The fluorescent teixobactin analogue retains partial antibiotic activity, with minimum inhibitory concentrations of 4-8 μg/mL across a panel of Gram-positive bacteria, as compared to 1-4 μg/mL for the unlabeled Arg10-teixobactin analogue. Lys(Rhod)9,Arg10-teixobactin is prepared by a regioselective labeling strategy that labels Lys9 with an amine-reactive rhodamine fluorophore during solid-phase peptide synthesis, with the resulting conjugate tolerating subsequent solid-phase peptide synthesis reactions. Treatment of Gram-positive bacteria with Lys(Rhod)9,Arg10-teixobactin results in septal and lateral staining, which is consistent with an antibiotic targeting cell wall precursors. Concurrent treatment of Lys(Rhod)9,Arg10-teixobactin and BODIPY FL vancomycin results in septal colocalization, providing further evidence that Lys(Rhod)9,Arg10-teixobactin binds to cell wall precursors. Controls with either Gram-negative bacteria, or an inactive fluorescent homologue with Gram-positive bacteria, showed little or no staining in fluorescence micrographic studies. Lys(Rhod)9,Arg10-teixobactin can thus serve as a functional probe to study Gram-positive bacteria and their interactions with teixobactin.

| S-EPMC7814985 | biostudies-literature

Synthesis and Sensing Applications of Fluorescent 3-Cinnamoyl Coumarins.

Project description:We have synthesized two novel fluorescent 3-(4-diethylaminocinnamoyl) coumarins that exhibit fluorescence quenching upon exposure to a nerve agent simulant, diethylchlorophosphate (DCP), providing a basis for rapid and sensitive DCP chemosensing. Furthermore, these coumarin derivatives display two-photon fluorescence upon illumination with near-infrared laser pulses and their two-photon (TP) absorption cross-section was evaluated. The potential for TP bio-imaging of these compounds was investigated by their cellular uptake in HeLa cells by TP confocal microscopy.

| S-EPMC4721820 | biostudies-other

Acid-Sensing Ion Channel 2: Function and Modulation.

Project description:Acid-sensing ion channels (ASICs) have an important influence on human physiology and pathology. They are members of the degenerin/epithelial sodium channel family. Four genes encode at least six subunits, which combine to form a variety of homotrimers and heterotrimers. Of these, ASIC1a homotrimers and ASIC1a/2 heterotrimers are most widely expressed in the central nervous system (CNS). Investigations into the function of ASIC1a in the CNS have revealed a wealth of information, culminating in multiple contemporary reviews. The lesser-studied ASIC2 subunits are in need of examination. This review will focus on ASIC2 in health and disease, with discussions of its role in modulating ASIC function, synaptic targeting, cardiovascular responses, and pharmacology, while exploring evidence of its influence in pathologies such as ischemic brain injury, multiple sclerosis, epilepsy, migraines, drug addiction, etc. This information substantiates the ASIC2 protein as a potential therapeutic target for various neurological, psychological, and cerebrovascular diseases.

| S-EPMC8880099 | biostudies-literature

Computational and experimental characterization of a fluorescent dye for detection of potassium ion concentration.

Project description:The fluorescence of the SKC-513 ((E)-N-(9-(4-(1,4,7,10,13-pentaoxa-16-azacyclooctadecan-16-yl)phenyl)-6-(butyl(3-sulfopropyl)amino)-3H-xanthen-3-ylidene)-N-(3-sulfopropyl)butan-1-aminium) dye is shown experimentally to have high sensitivity to binding of the K(+) ion. Computations are used to explore the potential origins of this sensitivity and to make some suggestions regarding structural improvements. In the absence of K(+), excitation is to two nearly degenerate states, a neutral (N) excited state with a high oscillator strength, and a charge-transfer (CT) state with a lower oscillator strength. Binding of K(+) destabilizes the CT state, raising its energy far above the N state. The increase in fluorescence quantum yield upon binding of K(+) is attributed to the increased energy of the CT state suppressing a nonradiative pathway mediated by the CT state. The near degeneracy of the N and CT excited states can be understood by considering SKC-513 as a reduced symmetry version of a parent molecule with 3-fold symmetry. Computations show that acceptor-donor substituents can be used to alter the relative energies of the N and CT state, whereas a methylene spacer between the heterocycle and phenylene groups can be used to increase the coupling between these states. These modifications provide synthetic handles with which to optimize the dye for K(+) detection.

| S-EPMC4207556 | biostudies-literature

Fluorescent-Nitrogen-Doped Carbon Quantum Dots Derived from Citrus Lemon Juice: Green Synthesis, Mercury(II) Ion Sensing, and Live Cell Imaging.

Project description:In this study, we report a green and economical hydrothermal synthesis of fluorescent-nitrogen-doped carbon quantum dots (NCQDs) using citrus lemon as a carbon source. The prepared NCQDs possess high water solubility, high ionic stability, resistance to photobleaching, and bright blue color under ultraviolet radiation with a high quantum yield (∼31%). High-resolution transmission electron microscopy (HRTEM) results show that the prepared NCQDs have a narrow size distribution (1-6 nm) with an average particle size of 3 nm. The mercury ion (Hg2+) sensing efficiency of the NCQDs was studied, and the result indicated that the material has high sensitivity, high precision, and good selectivity for Hg2+. The limit of detection (LOD) is 5.3 nM and the limit of quantification (LOQ) is 18.3 nM at a 99% confidence level. The cytotoxicity was evaluated using MCF7 cells, and the cell viabilities were determined to be greater than 88% upon the addition of NCQDs over a wide concentration range from 0 to 2 mg/mL. Based on the low cytotoxicity, good biocompatibility, and other revealed interesting merits, we also applied the prepared NCQDs as an effective fluorescent probe for multicolor live cell imaging.

| S-EPMC7057337 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data