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A Microwave-Assisted Direct Heteroarylation of Ketones Using Transition Metal Catalysis

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A Microwave-Assisted Direct Heteroarylation of Ketones Using Transition Metal Catalysis

CAUTION:

  • Microwave reaction vials should be operated under 20 bar for the microwave reactor equipped with a 4 x 24MG5 rotor. If the reaction uses very volatile solvents, generates gas, or if solvents decompose, it is necessary to calculate the pressure at certain reaction temperatures to make sure the total pressure in the vial is less than 20 bar.
  • Standard techniques in organic synthesis for glove box, flash chromatography and nuclear magnetic resonance (NMR) are utilized in this protocol.
  • Appropriate Personal Protective Equipment (PPE) should be used during the experiment. These include safety goggles, a lab coat, nitrile gloves, long pants and closed-toe shoes.
  • Consult all Safety Data Sheets (SDS) prior to the use of the chemicals in this procedure, as some of the chemicals are hazardous, corrosive, toxic or flammable.
  • All chemical waste should be disposed of properly in designated waste containers.

1. Reaction set up

  1. Use the following amounts of reagents for the example reaction in Figure 1 – the formation of 1-phenyl-2-(pyridin-3-yl)ethanone (compound 1a) from acetophenone and 3-iodopyridine.
  2. Oven-dry microwave reaction vials equipped with stirring bars overnight. Purge argon vigorously into toluene for 30 min to degas the solvent prior to use.
  3. Preparation of reagents and supplies for glove box usage
    1. Gather two 100 µL syringes, four small spatulas, two glass pipets, two microwave seals, two microwave caps, two microwave stirring bars, at least four pieces of pre-folded weighing paper, four Kimwipes, four rubber bands, and two 100 mL beakers along with all the necessary reactants/solvents.
    2. Put the microwave vials, seals, and caps in one of the 100 mL beakers, then cover the beaker with a Kimwipe and wrap a rubber band around the beaker to keep the Kimwipe in place.
    3. Place the beaker and the rest of the items from step 1.3.1 into the transport box and take it into the glove box workstation.
  4. Transport the reagents and supplies in step 1.3 into the glove box.
    1. Inside the purged glove box, weigh 115 mg of NaOtBu (molecular weight (MW) 96.1, 1.2 mmol, 2.4 eq.) directly into the microwave reaction vial.
    2. Use a glass pipet to add half of the degassed toluene (1 mL) into microwave reaction vial.
    3. Weigh 9 mg of precatalyst XPhos Pd G4 (MW 860.5, 0.01 mmol, 2 mol%) and add it into the microwave vial. Dip a spatula into the solution in the vial and swirl to ensure the complete transfer of the catalyst.
    4. Use a suitable microliter syringe to add 64.4 µL of acetophenone (MW 120.15, 66.1 mg, 0.55 mmol, 1.1 eq.) into the microwave vial.
    5. Weigh 103 mg of 3-iodopyridine (MW 205.0, 0.5 mmol, 1.0 eq.) and add it into the microwave vial.
    6. Add the remaining half of degassed toluene so that the total reaction mixture is about 3 mL.
      NOTE: The reaction solution volume should not exceed ¾ of the total volume capacity of the microwave reaction vial. For the standard glass vials used in this protocol, the vial volume is 4 mL and the recommended reaction volume is 0.3 mL – 3 mL.
    7. Line up the seal and the cap carefully and put them on the microwave reaction vial. The cap should be finger tight.
    8. Take the chemicals, supplies and trash out of the glove box.

2. Microwave irradiation

  1. Take the assembled reaction vial to the microwave reactor and place it on the silicon carbide (SiC) plate on the rotor. For multiple reaction vials, space them evenly across the four silicon carbide (SiC) plates on the rotor.
  2. Parameter set-up
    NOTE: The most important parameters are the IR sensor temperature limit, microwave power and time.
    1. Set the Infrared (IR) sensor temperature limit to 113 °C.
      NOTE: IR sensor-measured temperatures tend to be lower than reaction solution temperatures due to a non-preventable temperature gradient between the sample and the outside of the vessel. There is a linear relationship between these two temperatures: IR T (°C) = Reaction T (°C)/1.152. When the IR sensor temperature is 113 °C, the actual reaction temperature will be 130 °C using the equation given above.
    2. Program the microwave power and time for each step:
      Step 1: Power ramp = 1300 W, 10 min, Fan Level = 1, Stirrer = High
      Step 2: Power hold = 1300 W, 10 min, Fan Level = 1, Stirrer = High
      Step 3: Cooling = 60 °C, Fan Level = 3
      NOTE: The microwave power will adjust automatically when the actual reaction temperature reaches the target temperature.
  3. Run the reaction under microwave irradiation. Record the actual reaction time and temperature.

3. Product isolation

  1. After the microwave reaction vial cools to ambient temperature, transfer the reaction mixture into a separatory funnel using a minimal amount of ethyl acetate (EtOAc).
  2. Use acid-base extraction to isolate the crude product.
    1. Add 2 mL of saturated NH4Cl to the separatory funnel.
    2. Add 10 mL of EtOAc to the separatory funnel and extract the product. Separate the organic layer and save it in a clean, dry beaker. Repeat the extraction two more times, and combine the organic layers.
    3. Dry the combined organic layer with anhydrous Na2SO4 for 20 min.
    4. Decant the clear solution into a round bottom flask and evaporate the solvent by rotatory evaporation under reduced pressure to yield the crude product.
    5. Record the shape, color and mass of the crude product.
  3. Take 1H and 13C NMR spectra for the crude product to confirm the presence of the characteristic peaks for the expected product.
  4. Combine the crude product from the NMR sample with the rest of the crude product for flash chromatography purification below.
  5. Use automated flash chromatography to purify the final product.
    1. Sample loading: Dissolve the crude product in 1-2 mL of acetone, followed by the addition of 1.5 g of silica gel to make a slurry. Use rotatory evaporation to remove acetone very carefully so that the product is loaded on the silica gel. Transfer the resulting silica gel to an empty flash chromatography loading cartridge.
    2. Assemble the loading cartridge, prepacked column, test tube rack and solvent lines for the automated medium pressure liquid chromatography (MPLC) system.
    3. Set up the solvent gradient and other parameters for the MPLC system and run the flash chromatography.
      NOTE: The automated flash chromatography solvent gradients are suggested based on the heteroaryl product structural features:
      1) If the product has one or zero nitrogen atoms (N) or hydroxyl groups (OH), use EtOAc/hexanes (0% to 100% over 12 min) with an extension at 100% EtOAc gradient for 2-6 min.
      2) If the product has two or more nitrogen atoms (N) or hydroxyl groups (OH), use CH3OH/CH2Cl2 (0% to 30% over 12 min) with an extension at 30% CH3OH gradient for 1-3 min.
    4. Combine the desired MPLC fractions and evaporate the solvent to collect the pure product. Dry the purified product under high vacuum for at least 1 h to remove residual solvent.

4. Product characterization

  1. Weigh 5 – 10 mg of the final purified product, dissolve it in deuterated chloroform (CDCl3) (or other appropriate deuterated solvent), and take a 1H NMR spectrum.
  2. Weigh 10 – 30 mg of the final purified product, dissolve it in CDCl3 (or other appropriate deuterated solvent), and take a 13C NMR spectrum.
  3. Analyze the NMR spectra to confirm the product structure.
  4. Recover the NMR sample in a 1 dram vial by evaporating the solvent.
  5. Once the NMR spectra support the correct structure, submit a 1 mg sample for HRMS testing to confirm the molecular formula.

A Microwave-Assisted Direct Heteroarylation of Ketones Using Transition Metal Catalysis

Learning Objectives

The direct α-C(sp3) heteroarylation of ketones can be performed using this efficient microwave-assisted protocol. Selected examples of heteroaryl ketones synthesized in this study are shown in Figure 1. Specifically, compound 1a was synthesized and isolated as a pale-yellow oil (0.49 mmol, 192 mg, 98 %). Its 1H and 13C NMR spectra are shown in Figure 2 to confirm the structure and purity. The presence of a two-proton singlet signal δ 4.26 ppm in the 1H spectrum confirmed the successful C-C coupling between the ketone α carbon and the heteroaryl halide. The structures of all the synthesized heteroaryl compounds were confirmed by 1H NMR, 13C NMR and HRMS18.

For microwave-assisted organic reactions using non-polar or weakly polar solvents, the biggest challenge is to raise the reaction temperature to the desired range. The microwave reactor used in our study has a few unique features to achieve this purpose. First, it is equipped with four silica carbide (SiC) plates (Figure 3A) which have excellent microwave absorption ability that help to conduct the heat to reaction vials19. Second, the controlled microwave heating in sealed reaction vessels (Figure 3B) can achieve high temperature and high pressure and thus dramatically reduce reaction times. Third, it has two standard magnetrons of 850 W that can deliver up to 1500 W microwave power over the full power range. The microwave irradiation is continuously controlled by sophisticated software and wireless sensors to achieve homogeneous heating. The maximum available power for an experiment depends mainly on the solvent and number of vessels used.

The most frequently used solvent in our heteroarylation is toluene, a non-polar weak microwave absorber. Thus, the microwave power in our experiments was set to 1300 W, the highest recommended power. The high microwave power and silica carbide (SiC) plates are extremely important to help toluene achieve the desired reaction temperature. As seen in Figure 4, the reaction progress graph, the reaction mixture achieved the desired temperature of 130 °C in less than 10 min. This is important for efficient and successful heteroarylation reactions since the temperature has great impact on reaction yields, especially when the reaction time is only a few minutes.

As mentioned above, extreme caution is necessary if the experiment is performed in volatile solvents under microwave irradiation. Among the several solvents we tested for the heteroarylation, tetrahydrofuran (THF) has a boiling point of 66 °C and is used as an example of a volatile solvent to explain the total pressure calculation. Three components need to be considered for total pressure calculation: the solvent vapor, the inert gas introduced during the reaction set up, and any possible gas evolved during the reaction. First, under the current reaction temperature of 130 °C, THF will have a vapor pressure of 4121.5 mmHg or 5.49 bar. This can be estimated from the Antoine Equation:

log10(P) = A – [B / (T + C)]

where P is the calculated vapor pressure in mmHg and T is the temperature in Celsius (°C). The coefficients A, B and C for THF in the temperature range of 121 to 265 °C are 7.42725, 1532.81 and 272.081, respectively20.

Second, the pressure of the inert nitrogen will increase as the reaction temperature increases. The volume of the nitrogen is estimated to be 1 mL, which is the difference between the vial volume (4 mL) and the reaction solution volume (3 mL). Using the approximation that nitrogen volume does not change throughout the reaction, the final nitrogen pressure under the reaction temperature can be found to be 1.39 bar using the equation below:

P1/T1 = P2/T2

where P1 is 1 atm or 1.01325 bar, T1 is room temperature (293 K) and T2 is reaction temperature in Kelvin (130 °C; 403 K).

Finally, there is no gas evolved during the heteroarylation reaction, so product gas pressure is not needed for total pressure consideration. For those reactions that evolves gas (H2, NH3, CO2, etc), the following formula can be used to calculate the pressure increase caused by the evolved gas:

PV = nRT

where V is the volume above the solution in the reaction vial, n is the molar amount of gas evolved, R is the gas constant (8.314 x 10-2 L·bar·K-1·mol-1), and T is the reaction temperature in Kelvin.

Overall, the total pressure in a sealed vial at the reaction temperature when the volatile solvent THF is utilized for this heteroarylation is estimated to be:

P(total) = P(THF vapor pressure) + P(N2) + P(evolved gas) = 5.49 bar + 1.39 bar + 0 = 6.88 bar

This number is well below the microwave vial pressure limit of 20 bar, therefore, THF is a safe solvent to use in the reported direct heteroarylation reaction.

Besides the reaction conditions, the purification is also crucial for the successful preparation of heteroaryl compounds. The purification of heteroaryl compounds is often laborious and difficult due to the lone pair electrons on the heteroatom and the aromatic ring. Recrystallization is not ideal for small-scale reactions, so flash chromatography is the main technique we rely on. We struggled with several different modifications to improve the separation, such as adding 1% Et3N or toluene to the solvents. Eventually we settled on a slight modification of the EtOAc/hexanes solvent system by adding additional time at 100% EtOAc gradient at the end of the elution. This allowed us to isolate the compounds with one nitrogen very well (Figure 5A) as these compounds tend to elute around 70% – 100% EtOAc gradient. However, when this method was utilized for compounds with two or more nitrogen atoms, it took an additional 5 to 10 min to elute the column at the 100% EtOAc gradient to obtain the product. The CH3OH/CH2Cl2 solvent system was employed alternatively to purify compounds with two or more nitrogen atoms to get faster elution (Figure 5B).

Figure 1
Figure 1: Reaction scheme and selected examples for the microwave-assisted Pd-catalyzed heteroarylation of ketones. Reaction conditions are as follows unless otherwise noted: 1.0 equiv. heteroaryl halide, 1.1 equiv. ketone, 1 mol % XPhos Pd G4 catalyst, 2.4 equiv. tBuONa, toluene, microwave irradiation at 130 °C for 10 min.
a Reaction was conducted under traditional thermal conditions at 100 °C for 4 h.
b Reaction was conducted at room temperature for 3 days.
c Pd2(dba)3 was used as the catalyst and XPhos was used as the ligand. The catalyst and ligand were premixed in toluene for 30 min under Ar before the addition of the rest of the reagents. Reactions were conducted under microwave irradiation at 120 °C for 20 min.
d Reaction was conducted under microwave irradiation at 130 °C for 20 min due to the less reactive secondary α-carbon in cyclohexanone.
e This figure has been modified from Quillen, A., et al.18. Adapted with permission from Quillen, A., et al. Palladium-Catalyzed Direct α-C(sp3) Heteroarylation of Ketones under Microwave Irradiation. The Journal of Organic Chemistry. 84 (12), 7652-7663 (2019). Copyright 2019 American Chemical Society. Please click here to view a larger version of this figure.

Figure 2
Figure 2: 1H and 13C NMR Spectra for compound 1a. 1H NMR (CDCl3, 500 MHz, ppm): δ 8.53 (1H, s), 8.49 (1H, d, J = 5.05 Hz), 8.00 (2H, d, J = 7.6 Hz), 7.58 (1H, d, J = 6.85 Hz), 7.56 (1H, t, J = 7.8 Hz), 7.46 (2H, t, J = 7.8 Hz), 7.24 (1H, dd, J = 7.8,4.6 Hz), 4.26 (2H, s). 13C NMR (CDCl3, 125MHz, ppm): δ196.5, 150.7, 148.4, 137.3, 136.3, 133.6, 130.3, 128.9, 128.5, 123.5, 42.4. Please click here to view a larger version of this figure.

Figure 3
Figure 3: Silicon carbide (SiC) plates and microwave reaction vial assembly. (A) Four SiC plates are placed on the rotor inside the microwave reactor. Each plate can hold up to 24 reaction vials and up to 96 reactions can be set up for each experiment. (B) A close-up view of the microwave reaction vial, seal and cap. The microwave vial and seal are disposable, and the microwave cap is made of polyether ether ketone (PEEK) and it is reusable. Please click here to view a larger version of this figure.

Figure 4
Figure 4: Representative reaction progress graph: microwave power (blue) and IR sensor temperature (orange) versus reaction time. The IR sensor temperature reached 113 °C at 8 min during the ramp step, indicating the reaction solution temperature reached 130 °C. The microwave power was held at between 300 W and 500 W during the hold step. Please click here to view a larger version of this figure.

Figure 5
Figure 5: Representative flash chromatography purification plot. (A) Compound 6 eluted with EtOAc/hexanes (0% to 100% over 12 min) with an extension of 100% EtOAc for 3 min. (B) Compound 3 eluted with CH3OH/CH2Cl2 (0% to 30% over 12 min) with an extension of 30% CH3OH for 2 min. Please click here to view a larger version of this figure.

   

List of Materials

Chloroform-d (99.8+% atome D) Acros Organics AC209561000 contains 0.03 v/v% TMS
CombiFlash Rf Flash Chromatography system Teledyne Isco automated flash chromatography system
CombiFlash Solid load catridges (5 gram) Teledyne Isco 69-3873-235 disposable
CombiFlash prepacked column (4g) Teledyne Isco 69-2203-304 RediSep Rf silica 40-60 um, disposable
Microwave Reactor – Multiwave Pro Anton Paar 108041 Microwave Reactor
Microwave Reactor Rotor 4X24 MG5 Anton Paar 79114 for parallel organic synthesis with with 4 SiC Well Plate 24
Microwave reaction vials Wheaton® glass 224882 disposible, 13-425, 15×46 mm, reaction solution 0.3 – 3.0 mL, working pressure 20 bar
Microwave reaction vial seals, set Anton Paar 41186 made of Teflon; disposable
Microwave reaction vial screw cap Anton Paar 41188 made of PEEK; forever reusable
Microwave reaction vial stirring bar CTechGlass S00001-0000 Magnetic, PTFE, Length 9mm. Diameter: 3mm. (Package of 5)
NaOtBu Sigma-Aldrich 703788 stored in a glovebox under nitrogen atmosphere
Nuclear Magnetic Resonance Spectrometer Joel 500 MHz spectrometer
Silica gel Teledyne Isco 605394478 40-60 microns, 60 angstroms
Toluene Sigma-Aldrich 244511 vigorously purged with argon for 2 h before use
XPhos Palladacycle Gen. 4 Catalyst STREM 46-0327 stored in a glovebox under nitrogen atmosphere
various ketones Sigma-Aldrich or Fisher or Ark Pharm. substrates for heteroarylation
various heteroaryl halides Sigma-Aldrich or Fisher or Ark Pharm. substrates for heteroarylation

Preparação do Laboratório

Heteroarylation introduces heteroaryl fragments to organic molecules. Despite the numerous available reactions reported for arylation via transition metal catalysis, the literature on direct heteroarylation is scarce. The presence of heteroatoms such as nitrogen, sulfur and oxygen often make heteroarylation a challenging research field due to catalyst poisoning, product decomposition and the rest. This protocol details a highly efficient direct α-C(sp3) heteroarylation of ketones under microwave irradiation. Key factors for successful heteroarylation include the use of XPhos Palladacycle Gen. 4 Catalyst, excess base to suppress side reactions and the high temperature and pressure achieved in a sealed reaction vial under microwave irradiation. The heteroarylation compounds prepared by this method were fully characterized by proton nuclear magnetic resonance spectroscopy (1H NMR), carbon nuclear magnetic resonance spectroscopy (13C NMR) and high-resolution mass spectrometry (HRMS). This methodology has several advantages over literature precedents including broad substrate scope, rapid reaction time, greener procedure and operational simplicity by eliminating the preparation of intermediates such as silyl enol ether. Possible applications for this protocol include, but are not limited to, diversity-oriented synthesis for the discovery of biologically active small molecules, domino synthesis for the preparation of natural products and ligand development for new transition metal catalytic systems.

Heteroarylation introduces heteroaryl fragments to organic molecules. Despite the numerous available reactions reported for arylation via transition metal catalysis, the literature on direct heteroarylation is scarce. The presence of heteroatoms such as nitrogen, sulfur and oxygen often make heteroarylation a challenging research field due to catalyst poisoning, product decomposition and the rest. This protocol details a highly efficient direct α-C(sp3) heteroarylation of ketones under microwave irradiation. Key factors for successful heteroarylation include the use of XPhos Palladacycle Gen. 4 Catalyst, excess base to suppress side reactions and the high temperature and pressure achieved in a sealed reaction vial under microwave irradiation. The heteroarylation compounds prepared by this method were fully characterized by proton nuclear magnetic resonance spectroscopy (1H NMR), carbon nuclear magnetic resonance spectroscopy (13C NMR) and high-resolution mass spectrometry (HRMS). This methodology has several advantages over literature precedents including broad substrate scope, rapid reaction time, greener procedure and operational simplicity by eliminating the preparation of intermediates such as silyl enol ether. Possible applications for this protocol include, but are not limited to, diversity-oriented synthesis for the discovery of biologically active small molecules, domino synthesis for the preparation of natural products and ligand development for new transition metal catalytic systems.

Procedimento

Heteroarylation introduces heteroaryl fragments to organic molecules. Despite the numerous available reactions reported for arylation via transition metal catalysis, the literature on direct heteroarylation is scarce. The presence of heteroatoms such as nitrogen, sulfur and oxygen often make heteroarylation a challenging research field due to catalyst poisoning, product decomposition and the rest. This protocol details a highly efficient direct α-C(sp3) heteroarylation of ketones under microwave irradiation. Key factors for successful heteroarylation include the use of XPhos Palladacycle Gen. 4 Catalyst, excess base to suppress side reactions and the high temperature and pressure achieved in a sealed reaction vial under microwave irradiation. The heteroarylation compounds prepared by this method were fully characterized by proton nuclear magnetic resonance spectroscopy (1H NMR), carbon nuclear magnetic resonance spectroscopy (13C NMR) and high-resolution mass spectrometry (HRMS). This methodology has several advantages over literature precedents including broad substrate scope, rapid reaction time, greener procedure and operational simplicity by eliminating the preparation of intermediates such as silyl enol ether. Possible applications for this protocol include, but are not limited to, diversity-oriented synthesis for the discovery of biologically active small molecules, domino synthesis for the preparation of natural products and ligand development for new transition metal catalytic systems.

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