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33 protocols using dipea

1

Extraction and Characterization of Novel Compounds

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All the reagents and chemicals used for extraction, column chromatography (CC), thin layer chromatography (TLC), gas chromatography–mass spectrometry (GC–MS), NMR and chemical synthesis were HPLC grade (such as Fmoc-Pro-OH, Fmoc-Leu-OH, HOBt, EDC, DMF, DIPEA, DCM, piperidine, LiOH and MeOH), and were purchased from sigma Aldrich and Millipore. Column chromatography was carried out on silica gel 60 (0.040–0.063 mm, Merck, Darmstadt, Germany). TLC was performed with pre-coated Merck silica gel 60 PF254+366 (Merck, Darmstadt, Germany). Tryptic soy Broth (TSB) was purchased from Biolife.
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2

Synthesis of Fluorescent Peptide Conjugates

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All reagents were obtained from commercial sources and used as purchased: dichloromethane (DCM), N,N-diisopropylethylamine (DIPEA) and methanol (MeOH) from MiliporeSigma; dimethylformamide (DMF), diethyl ether and acetonitrile from RCI Labscan; piperidine, acetic anhydride and trifluoroacetic acid (TFA) from Chem-Supply; HATU from ChemImpex Int; HCTU from CSBio; ethylenediamine (Eda), triisopropylsilane (TIS), iodine flakes, glacial acetic acid and biotin from Sigma; 5(6)-carboxytetramethylrhodamine (5(6)-TAMRA) from ChemPep. All Fmoc-protected amino acids were supplied from CSBio, except for Fmoc-d-Phe-OH from Merck. Water was purified using a Milli-Q direct water-purification system.
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3

Synthesis and Purification of GGGK-CoA

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Fmoc-GGGK-CONH2 was dissolved in DMSO to a final concentration of 100 mM, then combined with 1.5 equivalents of LC-SMCC (Thermo-Fisher) and 2 equivalents of DIPEA (Sigma) in DMSO. The reaction was incubated for 1 hr at room temperature, then combined with 1.5 equivalents of coenzyme A trilithium hydrate (Sigma) in DMSO to a final peptide concentration of 25 mM and mixed at room temperature overnight. The Fmoc protecting group was removed with 20% vol/vol piperidine and incubation for 20 minutes. The reaction was quenched by the addition of 1 equivalent of TFA, and the product was purified on a preparative Kromasil 100–5-C18 column (21.2×250 mm, Peeke Scientific) by reverse phase HPLC (flow rate: 9.5 mL/min; gradient: 10% to 70% acetonitrile with 0.1% TFA in 0.1% aqueous TFA gradient over 30 minutes; retention time: 17.1 minutes). ESI-MS: [M-H]m/z = 1300.1 (observed); calculated for C45H72N14O23P3S = 1301.4. The concentration of GGGK-CoA peptide was determined from the measured A259 using the known molar extinction coefficient of coenzyme A 53 , 15,000 M−1 cm−1.
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4

Synthesis and Purification of GGGK-CoA

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Fmoc-GGGK-CONH2 was dissolved in DMSO to a final concentration of 100 mM, then combined with 1.5 equivalents of LC-SMCC (Thermo-Fisher) and 2 equivalents of DIPEA (Sigma) in DMSO. The reaction was incubated for 1 hr at room temperature, then combined with 1.5 equivalents of coenzyme A trilithium hydrate (Sigma) in DMSO to a final peptide concentration of 25 mM and mixed at room temperature overnight. The Fmoc protecting group was removed with 20% vol/vol piperidine and incubation for 20 minutes. The reaction was quenched by the addition of 1 equivalent of TFA, and the product was purified on a preparative Kromasil 100–5-C18 column (21.2×250 mm, Peeke Scientific) by reverse phase HPLC (flow rate: 9.5 mL/min; gradient: 10% to 70% acetonitrile with 0.1% TFA in 0.1% aqueous TFA gradient over 30 minutes; retention time: 17.1 minutes). ESI-MS: [M-H]m/z = 1300.1 (observed); calculated for C45H72N14O23P3S = 1301.4. The concentration of GGGK-CoA peptide was determined from the measured A259 using the known molar extinction coefficient of coenzyme A 53 , 15,000 M−1 cm−1.
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5

Synthesis of Thiophene-Based Compounds

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4-Dimethylaminoacetophenone, 4-dimethylaminobenzaldehyde, 2-acetylthiophene, thiophene-2-carboxaldehyde, diethylamine (DEA), potassium hydroxide, nitromethane, potassium carbonate, NH4OAc, n-BuOH were purchased from commercial suppliers in China. BF3·OEt2, TFA, TEA, NH4OAc, sodium sulfate anhydrous, sodium chloride, potassium hydrogen phthalate, potassium hydrogen phosphate, ethyl actetate, DMSO and DIPEA were purchased from Sigma Aldrich (St. Louis, MO, USA) and used as received. CH2Cl2, ethanol (EtOH), methanol, potassium chloride and hydrochloric acid were purchased from Minema (Johannesburg, South Africa). Sodium acetate was purchased from Saarchem (Johannesburg, South Africa), and acetic acid was purchased from B&M Scientific (Cape Town, South Africa). All chemicals were analytically pure and were used as received. Acetone-d6 and CDCl3 for 1H NMR spectroscopy, and spectroscopic grade solvents for optical spectroscopy were purchased from Sigma-Aldrich and Merck (Darmstadt, Germany), respectively.
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6

Synthesis of PEGylated Deferoxamine Conjugates

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The deferoxamine mesylate salt and the 8-arm-PEG-SG with different molecular weights (20 kDa and 40 kDa) were dissolved in anhydrous dimethyl sulfoxide. The DIPEA (Sigma, Aldrich) was added into the solution under magnetic stirring. The reaction was carried out under nitrogen at 25 °C for 24 h. The purification process was carried out by dialyzing against deionized water at 25 °C for another 24 h. The solution was freeze-dried to obtain the final products.
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7

HPLC Purification of Organic Compounds

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A 3 min gradient of 4% to 100% acetonitrile (containing 0.025% trifluoroacetic acid) in water (containing 0.05% trifluoroacetic acid) was used with a 4.5 min run time at a flow rate of 1 mL/min. A Phenomenex Gemini Phenyl column (3 μm, 3 × 100 mm) was used at a temperature of 50 °C.
All air or moisture sensitive reactions were performed under positive pressure of nitrogen or argon with oven-dried glassware. Anhydrous solvents and bases such as dichloromethane, N,N-dimethylforamide (DMF), acetonitrile, ethanol, DMSO, dioxane, DIPEA (diisopropylethylamine), and triethylamine were purchased from Sigma-Aldrich. Palladium catalysts were purchased from Strem Chemicals and used as such. Preparative purification was performed on a Waters semi-preparative HPLC system using a Phenomenex Luna C18 column (5 μm, 30 × 75 mm) at a flow rate of 45 mL/min (For all compounds tested, the HPLC traces were provided in Supplementary Figure S5). The mobile phase consisted of acetonitrile and water (each containing 0.1% trifluoroacetic acid). A gradient of 10% to 50% acetonitrile over 8 min was used during the purification. Fraction collection was triggered by UV detection (220 nm). Analytical analysis was performed on an Agilent LC/MS (Agilent Technologies, Santa Clara, CA).
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8

Synthesis and Surface Modification of Mesoporous Silica Nanoparticles

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MSNs were synthesized using the sol–gel emulsion described in [9 (link)]. In short, cetyltrimethylammonium bromide (CTAB, ≥99%, Sigma-Aldrich, Shanghai, China) served as a mesoporous template, followed by in situ polymerization using tetraethyl orthosilicate (TEOS, ≥99%, Sigma-Aldrich). After two hours, the surfactant CTAB was removed, and the resulting MSNs were filtered, washed, and dried under a high vacuum. Surface amine grafting was achieved through overnight refluxing by dried toluene (>99.3%, Honeywell Fluka, Seelze, Germany) and aminopropyl triethoxysilane (APTES, ≥99%, Sigma-Aldrich). Finally, the mixture was filtered and dried under vacuum to obtain MSN-NH2. Successful synthesis of the MNSs was assessed transmission electron microscopy as described in [9 (link)]. To protect the conformation of the peptide, interactions between the peptide and the MSNs were inhibited by modifying the MSNs with PEG4-N3. As described in [34 (link)], N3-PEG4-COOH (1 eq., >97%, Biomatrik, Jiaxing, Zhejiang, China), HATU (2 eq., 99%, Alfa Aesar, Kendel, Germany), and DIPEA, (3 eq., ≥99%, Sigma-Aldrich) were added to a suspension of MSN-NH2 in DMF (≥99.8%, Biosolve Chimie, Dieuze, France) and stirred overnight at room temperature, after which the MSNs were filtered and washed with water and ethanol to obtain MSN-PEG4-N3.
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9

Palladium-Catalyzed Cross-Coupling Synthesis

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Unless noted otherwise, all the reagents and solvents were purchased from widely available commercial sources and used as received. Substrates a, b, 2 and coupling reagent HATU were purchased from Ambeed. Reagents DIPEA, PdCl2(PPh3)2, XPhos, CuI and Cs2CO3 were purchased from Sigma- Aldrich. Anhydrous solvent DMF was also purchased from Sigma-Aldrich. The 1H and 13C NMR spectra’s were recorded in DMSO-d6 using a 500 MHz spectrometer and used tetramethyl silane as an internal standard. Chemical shifts reported in downfield as parts per million unit (δ ppm). 1H NMR data reported as follows: chemical shift (δ ppm) (multiplicity, coupling constant (Hz), integration). Flash chromatography using gold silica gel 12 g (230–400 mesh) column for purification. High resolution mass spectra (HRMS) were recorded using electron spray ionization (ESI) technique and as TOF mass analyzer. Synthesized compound was characterized using 1H, 13C NMR, and HRMS (See Figures S1 and S2).
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10

PEGylation of Amphetamine for In Vivo Studies

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Inspired by Yang et al. (2009) (link). Briefly, in a round-bottom flask (R)-1-phenylprop-2-ylamine hydrochloride salt (103 mg, 0.6 mmol, 2 equiv., Asiba Pharmatec.) was placed under inert atmosphere. A solution of methyl-PEG-NHS-ester reagent (1.1 mL, 100 mg, 0.39 mmol, 1 equiv., Thermo Scientific) in DMSO was then added, followed by the addition of diisopropylethylamine (DIPEA, 105 μL, 0.6 mmol, 2 eq, Sigma-Aldrich). The reaction was stirred at room temperature for 46 h, after which a multiple extraction with water/ethyl acetate was performed to remove the product from DMSO. Then preparative chromatography (5% EtOAc in MeOH, v/v) was performed to isolate compound PEGyAMPH in 98% yield (0.1 g). Characterization: 1H NMR (300 MHz, CDCl3) δ 7.25 – 7.11 (m, 5H), 6.53 – 6.26 (m, 1H), 4.19 (p, J = 6.8 Hz, 1H), 3.63 – 3.47 (m, 14H), 3.32 (s, 3H), 2.79 (dd, J = 13.5, 6.1 Hz, 1H), 2.65 (dd, J = 13.5, 7.1 Hz, 1H), 2.37 (t, J = 6.4 Hz, 2H), 1.06 (d, J = 6.6 Hz, 3H) ppm. 13C NMR (75 MHz, CDCl3) δ 170.92, 138.38, 129.55, 128.36, 126.40, 72.01, 70.70, 70.60, 70.46, 70.34, 67.43, 59.11, 46.02, 42.60, 37.21 ppm. HRMS: [M+H]+calc = 354.22750; [M+H]+real = 354.22783 (error –0.9 ppm). Scale-up of the reaction for the chronic in vivo treatments was reproduced by Wuxi AppTec.
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