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Dimedone

Manufactured by Merck Group
Sourced in Sao Tome and Principe, Germany

Dimedone is a chemical compound used as a reagent in analytical chemistry. It is a white crystalline solid that is commonly used in the detection and quantification of various carbonyl compounds, including aldehydes and ketones. Dimedone reacts with these compounds to form stable derivatives, which can be analyzed using various analytical techniques.

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19 protocols using dimedone

1

Kinetic Analysis of FsqB Imine Capture

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Steady-state kinetics were carried out at 25 °C in 100 mM phosphate buffer pH 7.0 with 100 nM FsqB at final volumes of 500 or 1000 μL at various initial concentrations of N-methyl-3,4-dihydroxy-DL-phenylalanine (11). Imine capture was carried out at 25 °C in 100 mM phosphate buffer pH 7.0 with 1.5 μM FsqB, 400 μM N-methyl-L-tyrosine (14), and 1 mM dimedone (15) (Sigma Aldrich) with <0.5% (v/v) methanol for dimedone solubility. Both kinetics and imine capture were monitored with low-resolution HPLC-MS performed on an Agilent 1100 series HPLC system equipped with a diode array detector and connected to a Quattro II mass spectrometer (Micromass/Waters) operated in electrospray negative ionization (ESI) mode for kinetic analysis and positive electrospray ionization (ESI+) mode for imine capture. Kinetic data analysis was performed using GraphPad Prism version 6.00 for Windows (GraphPad Software).
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2

Kinetic Analysis of FsqB Imine Capture

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Steady-state kinetics were carried out at 25 °C in 100 mM phosphate buffer pH 7.0 with 100 nM FsqB at final volumes of 500 or 1000 μL at various initial concentrations of N-methyl-3,4-dihydroxy-DL-phenylalanine (11). Imine capture was carried out at 25 °C in 100 mM phosphate buffer pH 7.0 with 1.5 μM FsqB, 400 μM N-methyl-L-tyrosine (14), and 1 mM dimedone (15) (Sigma Aldrich) with <0.5% (v/v) methanol for dimedone solubility. Both kinetics and imine capture were monitored with low-resolution HPLC-MS performed on an Agilent 1100 series HPLC system equipped with a diode array detector and connected to a Quattro II mass spectrometer (Micromass/Waters) operated in electrospray negative ionization (ESI) mode for kinetic analysis and positive electrospray ionization (ESI+) mode for imine capture. Kinetic data analysis was performed using GraphPad Prism version 6.00 for Windows (GraphPad Software).
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3

Kinetic Analysis of AhpC Oxidation

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Recombinant C165A mutant of Salmonella typhimurium AhpC was purified and oxidized as described in previous work [[12] (link), [13] (link), [14] , [15] (link), [16] (link), [17] ]. The C165A AhpC-SOH (50 μM, also containing -SN and -SO2/3H species) was incubated with a mixture of 2.5 mM dimedone (Sigma) and F-DCP at a molar ratio of 1:0, 1:1, 1:2, and 1:3 at 25 °C in ammonium bicarbonate buffer pH 8.0. Samples were taken and analyzed at different time points (30, 60 min and 90 min) by ESI-TOF MS (Electrospray Ionization Time-of-Flight Mass Spectrometry) on an Agilent 6120 MSD-TOF system. The analysis was performed in positive ion mode with the following settings: capillary voltage: 3.5 kV, nebulizer gas pressure: 30 psig, drying gas flow: 5 L/min, fragmentor voltage: 200 V, skimmer voltage: 65 V, and gas temperature: 325 °C. Processing of data to generate the deconvoluted MS spectra was performed with Agilent MassHunter Workstation software v B.02.00. Kinetics analysis was performed by quantifying peak areas of dimedone and F-DCP AhpC covalent adducts and plotting F/(1-F) against [F-DCP]/[dimedone] in KaleidaGraph [18 (link)].
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4

Graphite-based Hybrid Materials Synthesis

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Graphite powder, 1-methylimidazole (99%), (3-chloropropyl)-trimethoxysilane (97%), iron(iii) chloride hexahydrate (≥99%), dimedone (95%), malononitrile (≥99%), and ethanol (99%) were all purchased from Sigma-Aldrich. Sulfuric acid (95–98%), phosphorus pentoxide, potassium persulfate, potassium permanganate, hydrogen peroxide (30%), hydrochloric acid (37%), and benzaldehydes (97–99%) were purchased from Merck. Deionized water was distilled by water purification system (Milli-Q System). Fourier transform infrared (FT-IR) spectroscopy was recorded on a Bruker-Vector 22 spectrometer (Germany). Powder X-ray diffraction (PXRD) was obtained using a Bruker D8 ADVANCE diffractometer (Germany). Thermal gravimetric analysis (TGA) was carried out using a Netzsch STA 409 PC/PG apparatus (Germany). The morphology of the particles was characterized by TESCAN-Vega 3 scanning electron microscope (SEM) (Czech Republic). Energy dispersive X-ray (EDX) spectroscopy was obtained by using TESCAN-Vega 3 apparatus (Czech Republic).
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5

Thiostrepton Purification and Testing

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Thiostrepton was purchased from EMB Biochemicals (Billerica, MA). Gentian violet was a kind gift from J. Arbiser (Emory University, Atlanta, GA). Dimedone, glutathione, N-acetyl-L-cysteine, and N-ethyl maleimide were purchased from Sigma (St. Louis, MO). Tris (2-carboxyethyl) phosphine (TCEP) was purchased from Thermo Scientific (Rockford, IL).
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6

Chemoproteomic Redox Profiling Workflow

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EGF (BD Biosciences) and H2O2 (Sigma) were prepared in ddH2O. DYn-2 (≥99% purity) was synthesized as previously described and prepared in DMSO (250 mM) (Paulsen, et al., 2012 (link)). Dimedone (250 mM, Sigma) was prepared in 70% DMSO/30% Bis-Tris (500 mM, pH 7.4). Catalase (20,000 U/ml, Sigma) and glucose oxidase (500 U/ml, Sigma) were prepared fresh in 50 mM Tris-HCl pH 7.4. Azide biotin (5 mM, Invitrogen) and TAMRA azide (5 mM, Invitrogen) were prepared in DMSO. BTTP (100 mM, Kerafast) was prepared in DMSO, and stock dilutions were prepared with ddH2O. Sodium L-ascorbate (Sigma) and CuSO4 (Sigma) were prepared fresh in ddH2O. Afatinib (10 mM, ChemieTek, ≥99% purity) and PD168393 (10 mM, Santa Cruz Biotechnology, ≥95% purity) stocks were prepared in DMSO.
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7

Synthesis and Characterization of Silica-based Nanostructures

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All chemical substances have been used as bought from Sigma-Aldrich and Merck Companies. Tetraethyl orthosilicate (tetraethoxysilane) (98% w/w), ethanol (99.5% w/w), (3-aminopropyl) triethoxysilane (95% w/w), HNO3 (65% w/w), and silver nitrate (≥ 99.0%), potassium persulphate (99.99%), hydrazine hydrate (24–26% in H2O (RT)), isatin (97%), acenaphthene quinone (97%), malononitrile (98%), ethyl cyanoacetate (98%), dimedone (95%), barbituric acid ethyl acetoacetate (99%), 4-hydroxycoumarin (98%), three-methyl-1H-pyrazole-five (4H)-one (98%), α-naphthol (99%), β-naphthol (99%), n-hexane (99%), ethyl acetic acid (99%), and desired derivations have been provided from the Sigma-Aldrich Company. The stem and roots of the Spear Thistle were purchased from a local shop in Tehran (in Iran). The leaves were purchased from a local shop in Tehran. The plant we used in this work is a plant that is found in abundance in local shops and is not wild and endangered. This study complies with relevant institutional, national, and international guidelines and legislation.
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8

Keap1-Nrf2 Complex Immunoprecipitation

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Whole cell protein lysates were prepared from 90% confluent cell cultures in 100 mm culture dishes (Sigma, St. Louis, MO). Briefly, cell pellets were resuspended in 100 mM 5,5-dimethylcyclohexane-1,3-dione (Dimedone, Sigma) and incubated at 37°C for 60 min under agitation. After washing with PBS, pellets were lysed in RIPA buffer (Cell Signaling) and then sonicated for 15 seconds using Sonic Dismembrator (ThermoFisher). Following sonication, supernatant was moved to a new tube and samples were incubated with 2 μg/mL primary antibody [mouse anti-Keap1, 1:100 (Abcam)] for 24 h at 4°C. Magnetic beads [Dynabeads M-280 anti-mouse IgG (Thermo Fisher Scientific)] was then added and samples were incubated for 3 hours at 4°C. After 3 washes, samples were analyzed by Western blotting as described above.
For co-immunoprecipitation of Cav-1/Keap1/Nrf2 complex, a direct immunoprecipitation method was used. Briefly, magnetic beads [Dynabeads M-280 anti-mouse or anti-rabbit IgG (Thermo Fisher Scientific)] were incubated with primary antibody [anti-rabbit Nrf2 1:100 (Santa Cruz) or anti-mouse Keap1 1:100 (Abcam)]) for 6 h at 4°C. Beads were then washed to remove unbound primary antibody. Following treatment (400 μM H2O2, 1 h), cell lysates were added to the Dynabead/Antibody cocktail and incubated at 4°C overnight. Samples were washed twice with PBS and then analyzed by Western blot.
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9

Synthesis and Characterization of Nanomaterials

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Solvents and all materials were purchased from commercial resources and utilized as received without any further purification. Histamine dihydrochloride (Sigma-Aldrich, >99%), aromatic aldehydes (Merck, Fluka and Sigma-Aldrich, 98–99%), dimedone (Sigma-Aldrich, >97%), 4-hydroxycoumarin (Fluka, purum), and acetonitrile (Sigma-Aldrich, 99.8%) were used as received. The performed LEDs were commercial and no cutoff filter was used. Fourier transform infrared (FT-IR) spectra were recorded on a Shimadzu 8700 Fourier transform spectrophotometer in the range 400 to 4000 cm−1 with KBr pellets. UV-visible spectra were recorded on a Photonix UV-visible array spectrophotometer. X-ray diffraction (XRD) patterns were acquired on a PHILIPS PW 1730 diffractometer with Cu Kα at 30 mA, 40 keV and a scanning rate of 3° min−1 in the 2θ domain from 5 to 80°. Energy dispersive X-ray spectroscopy (EDS) was performed with an Electron Probe Microanalyser JEOL JXA-8230 equipped with an energy dispersive spectrometer Bruker QUANTAX 200. A Mira 3-MU field emission scanning electron microscope (FESEM) was used to investigate the morphology of the synthesized nanomaterials. Particle size and further morphology studies were performed on a TEM (Philips CM-200 and Titan Krios). NMR experiments were carried out on a Bruker Avance DMX600 instrument operating at 400 MHz for proton.
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10

Synthesis and Characterization of Bent-Gu-CD Catalyst

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For the fabrication of the catalyst the following chemicals were applied: (3-chloropropyl) trimethoxysilane (CPTES), isatin (IS), triethylamine (TEA), guanidine (Gu), β-CD, p‐toluenesulfonyl chloride (p‐TsCl), K2CO3, toluene, EtOH and Bent. Bent was obtained from Madan Kavan Co. Iran. The other reagents were purchased from Sigma-Aldrich. For performing the ultrasonic-assisted chemical transformations, benzaldehyde, malononitrile, dimedone and urea (provided from Sigma-Aldrich) have been used.
Bent-Gu-CD synthesis was verified by Fourier transform infrared (FTIR), Thermo gravimetric analysis (TGA), X-ray diffraction (XRD), scanning electron microscope (SEM), energy dispersive spectroscopy (EDS) and elemental mapping analysis. The FTIR spectrum were collected using PERKIN-ELMER Spectrum 65. For TGA, METTLER TOLEDO apparatus was employed. The tests were carried out under N2 atmosphere at heating rate of 10 °C min−1. XRD pattern of Bent-Gu-CD was gathered via Siemens, D5000 apparatus with Cu Kα as a radiation source. SEM /EDX analyses were carried out on MIRA 3 TESCAN-XMU. Brunauer Emmett Teller (BET) analysis was carried out via a Belsorp Mini II apparatus. Degassing was performed at 150 °C for 3 h.
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