Structure of 60025-06-1
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The BI-3802 was designed by Boehringer Ingelheim and could be obtained free of charge through the Boehringer Ingelheim open innovation portal opnMe.com, associated with its negative control.
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CAS No. : | 60025-06-1 |
Formula : | C6H4Cl2N2O |
M.W : | 191.02 |
SMILES Code : | CC(C1=C(Cl)N=CN=C1Cl)=O |
MDL No. : | MFCD13689148 |
InChI Key : | AMOPGZSOKQKCHT-UHFFFAOYSA-N |
Pubchem ID : | 12278259 |
GHS Pictogram: |
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Signal Word: | Warning |
Hazard Statements: | H302-H315-H319-H335 |
Precautionary Statements: | P261-P305+P351+P338 |
Num. heavy atoms | 11 |
Num. arom. heavy atoms | 6 |
Fraction Csp3 | 0.17 |
Num. rotatable bonds | 1 |
Num. H-bond acceptors | 3.0 |
Num. H-bond donors | 0.0 |
Molar Refractivity | 42.25 |
TPSA ? Topological Polar Surface Area: Calculated from |
42.85 Ų |
Log Po/w (iLOGP)? iLOGP: in-house physics-based method implemented from |
1.51 |
Log Po/w (XLOGP3)? XLOGP3: Atomistic and knowledge-based method calculated by |
1.81 |
Log Po/w (WLOGP)? WLOGP: Atomistic method implemented from |
1.99 |
Log Po/w (MLOGP)? MLOGP: Topological method implemented from |
0.52 |
Log Po/w (SILICOS-IT)? SILICOS-IT: Hybrid fragmental/topological method calculated by |
2.48 |
Consensus Log Po/w? Consensus Log Po/w: Average of all five predictions |
1.66 |
Log S (ESOL):? ESOL: Topological method implemented from |
-2.5 |
Solubility | 0.601 mg/ml ; 0.00315 mol/l |
Class? Solubility class: Log S scale |
Soluble |
Log S (Ali)? Ali: Topological method implemented from |
-2.33 |
Solubility | 0.895 mg/ml ; 0.00469 mol/l |
Class? Solubility class: Log S scale |
Soluble |
Log S (SILICOS-IT)? SILICOS-IT: Fragmental method calculated by |
-3.22 |
Solubility | 0.114 mg/ml ; 0.000598 mol/l |
Class? Solubility class: Log S scale |
Soluble |
GI absorption? Gatrointestinal absorption: according to the white of the BOILED-Egg |
High |
BBB permeant? BBB permeation: according to the yolk of the BOILED-Egg |
Yes |
P-gp substrate? P-glycoprotein substrate: SVM model built on 1033 molecules (training set) |
No |
CYP1A2 inhibitor? Cytochrome P450 1A2 inhibitor: SVM model built on 9145 molecules (training set) |
Yes |
CYP2C19 inhibitor? Cytochrome P450 2C19 inhibitor: SVM model built on 9272 molecules (training set) |
No |
CYP2C9 inhibitor? Cytochrome P450 2C9 inhibitor: SVM model built on 5940 molecules (training set) |
No |
CYP2D6 inhibitor? Cytochrome P450 2D6 inhibitor: SVM model built on 3664 molecules (training set) |
No |
CYP3A4 inhibitor? Cytochrome P450 3A4 inhibitor: SVM model built on 7518 molecules (training set) |
No |
Log Kp (skin permeation)? Skin permeation: QSPR model implemented from |
-6.18 cm/s |
Lipinski? Lipinski (Pfizer) filter: implemented from |
0.0 |
Ghose? Ghose filter: implemented from |
None |
Veber? Veber (GSK) filter: implemented from |
0.0 |
Egan? Egan (Pharmacia) filter: implemented from |
0.0 |
Muegge? Muegge (Bayer) filter: implemented from |
1.0 |
Bioavailability Score? Abbott Bioavailability Score: Probability of F > 10% in rat |
0.55 |
PAINS? Pan Assay Interference Structures: implemented from |
0.0 alert |
Brenk? Structural Alert: implemented from |
0.0 alert: heavy_metal |
Leadlikeness? Leadlikeness: implemented from |
No; 1 violation:MW<1.0 |
Synthetic accessibility? Synthetic accessibility score: from 1 (very easy) to 10 (very difficult) |
1.54 |
* All experimental methods are cited from the reference, please refer to the original source for details. We do not guarantee the accuracy of the content in the reference.
Yield | Reaction Conditions | Operation in experiment |
---|---|---|
93% | With Dess-Martin periodane; In dichloromethane; at 0 - 20℃; for 1.58333h;Inert atmosphere; | Step 2.1-(4,6-Dichloro-pyrimidin-5-yl)-ethanone; 1,1,1-Tris(acetyloxy)-1,1-dihydro-1,2-benziodoxol-3-(1H)-one (Dess-Martin periodinane; 1.3 g, 3.1 mmol) was added to a solution of 1-(4,6-dichloro-pyrimidin-5-yl)-ethanol (from Step 1; 540 mg, 2.8 mmol) in dichloromethane at 0 C. under nitrogen. The reaction mixture was stirred at 0 C. for 5 min and then at room temperature for 90 min. Saturated aqueous sodium bicarbonate solution was added and the mixture was extracted with dichloromethane (3×50 mL). The organic layers were washed with water and brine, dried (sodium sulfate), filtered, and evaporated. The residue was triturated twice with ether/petroleum ether (2:1), the solvent was decanted and the solvent was evaporated to give 1-(4,6-dichloro-pyrimidin-5-yl)-ethanone (500 mg, 93%) which was used directly in the next step without further purification. 1H NMR (300 MHz, CDCl3) delta 2.64 (s, 3H), 8.83 (s, 1H). |
86% | With chromium(VI) oxide; In acetone; for 2.5h; | A solution of 1-(4,6-dichloropyrimidin-5-yl)ethanol (8.95 g, 46.4 mmol) in 140 mL of acetone was treated with chromium trioxide (9.27 g, 92.7 mmol). After stirring for 2.5 h, the mixture was quenched with 15 mL of isopropanol and stirred 15 min. The mixture was poured slowly into 500 mL of saturated sodium bicarbonate at O0C. The mixture was extracted 3X with dichloromethane. The combined organics were dried with sodium sulfate to give 8.02 g of material. Chromatography on silica gel, eluting with 10% ethyl acetate / hexanes gave 7.62 g (86%) of 1-(4,6-dichloropyrimidin-5-yl)ethanone; HPLC TR 4.92 min (HPLC Conditions H). |
85% | With chromium(VI) oxide; In acetone; at 20℃; for 2h; | 980 mg (5.08 mmol) of 1-(4,6-dichloropyrimidine-5-yl)ethane-1-ol prepared in step 2 was dissolved in 30 mL of acetone, to which 1.0 g (10.2 mmol, 2.0 eq) of chromium trioxide was slowly added, followed by stirring at room temperature for 2 hours. 2 mL of Isopropylalcohol was added thereto, followed by stirring for 10 minutes. 20 mL of saturated sodiumbicarbonate aqueous solution was added to the reaction mixture, followed by extraction with ethylacetate. The extracted organic layer was dried over Na2SO4, filtered, and concentrated under reduced pressure. The residue was separated by column chromatography (SiO2, eluent: hexane/ethylacetate, 6/1) to give 823 mg of the target compound 1-(4,6-dichloropyrimidine-5-yl)ethane-1-one as a white solid (4.3 mmol, yield: 85%). 1H NMR(300 MHz, CDCl3) delta 8.84 (s, 1H) , 2.63 (s, 3H). |
55% | With manganese(IV) oxide; In dichloromethane; at 20℃; for 20h; | Step 1 - Synthesis of Compound 13 AA solution of 4,6-Dichloro-5-pyrimidinecarbaldehyde (12C, 2.2 g) in ether (3 mL) was added dropwise to the MeMgBr (3.0 M in ether solution, 5.4 mL). The resulting reaction was allowed to stir at room temperature under nitrogen for 3 hours, then filtered and the yellow solid collected was dissolved in 10% aqueous NH4Cl (100 mL). The resulting solution was extracted with ether (3x) and the combined organics were washed with NaHSO3, then with water and brine. The organic phase was dried over MgSO4, filtered and concentrated in vacuo to provide a white solid residue (1.565 g, 65%), which was dissolved in DCM (30 mL). To the resulting solution was added MnO2 (15.5 g, 22 eq) and the resulting reaction was allowed to stir at room temperature for 20 hours, then filtered through a short pad of celite. The yellow filtrate was concentrated in vacuo to provide compound 13A as a yellow solid (860 mg, 55%). |
Yield | Reaction Conditions | Operation in experiment |
---|---|---|
89% | With triethylamine; hydrazine; In 1,4-dioxane; at 0 - 20℃; for 18h; | A solution of <strong>[60025-06-1]1-(4,6-dichloropyrimidin-5-yl)ethanone</strong> (3.81 g, 19.9 mmol) in 90 mL of dioxane at 0 0C was treated with triethylamine (2.78 mL, 19.9 mmol) and hydrazine hydrate (1.16 mL, 23.9 mmol). After addition, the reaction was stirred for 18 h at rt. The mixture was filtered and the precipitate washed with dioxane. The combined organics were evaporated and chromatographed on silica gel, eluting with 30-35% ethyl acetate/ hexanes to afford 2.98 g, (89%) of 4-chloro-3-methyl-1 H-pyrazolo[3,4-d]pyrimidine; 1H NMR (500 MHz, DMSO-cfe) delta 8.71 (1H), 2.60 (3H) ppm. |
89% | With triethylamine; hydrazine; In 1,4-dioxane; at 0 - 25℃; for 18h; | Step 1 : A solution of <strong>[60025-06-1]1-(4,6-dichloropyrimidin-5-yl)ethanone</strong> (3.81 g, 19.9 mmol) (see Clark et al., J.C.S. Perkin 1 , 1976, 1004) in dioxane (90 mL) was cooled to O0C, and the chilled solution was treated with TEA (2.78 mL, 19.9 mmol) and hydrazine hydrate (1.16 mL, 23.9 mmol). The reaction mixture was then stirred for 18 hr. at 25SC. The mixture was filtered and the precipitate washed with dioxane. The combined filtrates were concentrated, and the resultant residue was chromatographed on silica gel, eluting with 30-35% ethyl acetate/ hexanes to provide 4-chloro-3-methyl-1 H-pyrazolo[3,4-d]pyrimidine (C24). Yield: 2.98 g, 89%. 1H NMR (500 MHz, DMSO-d6) delta: 8.71 (1 H), 2.60 (3H) ppm. |
Yield | Reaction Conditions | Operation in experiment |
---|---|---|
50.29% | EXAMPLE 53 -A; 4-(4-(4-(4-fluoro-3-(trifluoromethyl)phenyl)-l -methyl- lH-imidazol-2-yl)piperidin-l-yl)-3-methyl-lH-pyrazolo[3,4-t/1pyrimidine; In a microwave vial charge 4-[4-(4-fluoro-3-trifluoromethyl-phenyl)-l-methyl- lH-imidazol-2-yl]-piperidine dihydrochloride salt (0.5g, l.Oeq), l-(4,6-dichloro- pyrimidin-5-yl)-ethanone (0.22g, l.Oeq), TEA (1.2 mL, 8.0eq) and isopropyl alcohol (5 mL). Stirr the reaction mass at 800C for 45 min in microwave. Monitor the reaction by <n="54"/>TLC (10% MeOH in DCM). Cool the reaction mass to 00C and add hydrazine hydrate (0.07 mL, 1.2eq). Slowly bring the reaction mass to RT. Stirr the reaction mass at 800C for 45min in microwave. Monitor the reaction by TLC (10% MeOH in DCM). Concentrate the reaction mass under vacuum. Charge ethyl acetate and then wash with water and saturated aq. sodium chloride. Dry the organic layer over anhydrous Na2SO4 and concentrate it under reduced pressure. Purify the compound by column chromatography (Silica gel 60-120 mesh, DCM - Methanol). Crystallize the product in diethyl ether and filter it to give 4-(4-(4-(4-fluoro-3-(trifluoromethyl)phenyl)-l-methyl- lH-imidazol-2-yl)piperidin-l-yl)-3-methyl-lH-pyrazolo[3,4-betaT|pyrimidine (0.254g,50.29%). MS (M+eta): m/z = 460.5 |
Yield | Reaction Conditions | Operation in experiment |
---|---|---|
With triethylamine; In 1,4-dioxane; at 8 - 20℃; for 2.5h; | Synthesis of Compound 6.1. Hydrazine hydrate (107 uL, 2.20 mmol) was slowly added to a solution of <strong>[60025-06-1]1-(4,6-dichloro-pyrimidin-5-yl)-ethanone</strong> (Clark, J. et al J. Chem. Soc. 1976, 9, 1004) (400 mg, 2.09 mmol) and triethylamine (280 uL, 2.0 mmol) in 1,4-dioxane (7 mL) at 8 C. After the addition was complete, the reaction mixture was warmed to RT. After 2.5 hr, the reaction mixture was filtered through celite and then evaporated to afford compound 6.1 (200 mg) as a yellow solid. 1H-NMR (400.13 MHz, DMSO-d6) 14.07 (s, 1H), 8.75 (s, 1H), 2.64 (s, 3H). MS m/z 169 [M+1]+. |
Yield | Reaction Conditions | Operation in experiment |
---|---|---|
33% | With triethylamine; In toluene; at 20℃; for 8h;Inert atmosphere; Reflux; | Intermediate 21: 4-(4-Chloro-3-methyl-pyrazolo[3,4-d]pyrimidin-1-yl)-piperidine-1-carboxylic acid isopropyl ester; Triethylamine (0.33 mL, 2.4 mmol) was added to a stirred mixture of 4-hydrazino-piperidine-1-carboxylic acid isopropyl ester hydrochloride (Intermediate 10; 188 mg, 0.8 mmol) and <strong>[60025-06-1]1-(4,6-dichloro-pyrimidin-5-yl)-ethanone</strong> (Intermediate 17; 150 mg, 0.8 mmol) in toluene (5 mL) at room temperature under nitrogen and the resulting mixture was heated to reflux for 8 hours. The solvent was removed in vacuo and the crude reaction mixture was purified on a flash silica column (30 mm×4) eluting with 10-33% ethyl acetate/hexanes to give 4-(4-chloro-3-methyl-pyrazolo[3,4-d]pyrimidin-1-yl)-piperidine-1-carboxylic acid isopropyl ester (90 mg, 33%). 1H NMR (300 MHz, DMSO-d6) delta 1.19 (d, 6H, J=6.3 Hz), 1.86-1.99 (m, 4H), 2.63 (s, 3H), 2.94-3.10 (m, 2H), 4.04-4.15 (m, 1H), 4.74-4.82 (m, 1H), 4.91-4.98 (m, 1H), 8.77 (s, 1H). |
Yield | Reaction Conditions | Operation in experiment |
---|---|---|
12% | With N-ethyl-N,N-diisopropylamine; In N,N-dimethyl-formamide; at 20 - 60℃; for 21.5h;Inert atmosphere; | Step 2 - Synthesis of Compound 13B; Compound 13A (860 mg) was dissolved in DMF (5 mL) and to the resulting solution was added DIPEA (1.1 mL, 1.4 eq), followed by compound 12B (1.36 g, 1.4 eq). The resulting reaction was allowed to stir at room temperature under nitrogen atmosphere for 2.5 hours, then the reaction mixture was heated at 60 0C and allowed to stir at this temperature for an additional 19 hours. The reaction mixture was cooled to room temperature and concentrated in vacuo to provide a brown oily residue which was purified using flash column chromatography on silica gel to provide compound 13B (192 mg, 12%). |
Yield | Reaction Conditions | Operation in experiment |
---|---|---|
95% | With N-ethyl-N,N-diisopropylamine; In dichloromethane; at 0 - 20℃; for 7h; | 3.82 g (20.0 mmol) of <strong>[60025-06-1]1-(4,6-dichloropyrimidine-5-yl)ethane-1-one</strong> was dissolved in 30 mL of dichloromethane, which was cooled down to 0 C., to which 3.88 g (30.0 mmol) of diisopropylethylamine and 3.29 g (24.0 mmol) of p-methoxybenzylamine (PMBNH2) were added stepwise. 1 hour later, the reaction mixture was heated to room temperature, followed by stirring at room temperature for 6 hours. Water and ethylacetate were added to the reaction mixture, followed by extraction. The extracted organic layer was dried over Na2SO4, filtered, and concentrated under reduced pressure. The residue was separated by column chromatography (SiO2, eluent: hexane/ethylacetate, 3/1) to give 5.54 g of the target compound 1-(4-chloro-6-((4-methoxybenzyl)amino)pyrimidine-5-yl)ethane-1-one as a white solid (19.0 mmol, yield: 95%). 1H NMR(300 MHz, CDCl3) delta 9.07 (br s, 1H, NH), 8.38 (s, 1H), 7.25 (d, J=8.1 Hz, 2H), 6.88 (d, J=8.1 Hz, 2H) , 4.67 (d, J=4.8 Hz, 2H) , 3.81 (s, 3H) , 2.74 (s, 3H). |
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