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Chemical Structure| 5650-52-2 Chemical Structure| 5650-52-2

Structure of 5650-52-2

Chemical Structure| 5650-52-2

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Product Details of [ 5650-52-2 ]

CAS No. :5650-52-2
Formula : C7H6OS
M.W : 138.19
SMILES Code : C1=CSC2=C1CCC2=O
MDL No. :MFCD03426936
InChI Key :QHZITEHQKWPDJE-UHFFFAOYSA-N
Pubchem ID :315614

Safety of [ 5650-52-2 ]

GHS Pictogram:
Signal Word:Warning
Hazard Statements:H302-H315-H319-H332-H335
Precautionary Statements:P261-P280-P305+P351+P338

Computational Chemistry of [ 5650-52-2 ] Show Less

Physicochemical Properties

Num. heavy atoms 9
Num. arom. heavy atoms 5
Fraction Csp3 0.29
Num. rotatable bonds 0
Num. H-bond acceptors 1.0
Num. H-bond donors 0.0
Molar Refractivity 37.37
TPSA ?

Topological Polar Surface Area: Calculated from
Ertl P. et al. 2000 J. Med. Chem.

45.31 Ų

Lipophilicity

Log Po/w (iLOGP)?

iLOGP: in-house physics-based method implemented from
Daina A et al. 2014 J. Chem. Inf. Model.

1.6
Log Po/w (XLOGP3)?

XLOGP3: Atomistic and knowledge-based method calculated by
XLOGP program, version 3.2.2, courtesy of CCBG, Shanghai Institute of Organic Chemistry

1.68
Log Po/w (WLOGP)?

WLOGP: Atomistic method implemented from
Wildman SA and Crippen GM. 1999 J. Chem. Inf. Model.

1.88
Log Po/w (MLOGP)?

MLOGP: Topological method implemented from
Moriguchi I. et al. 1992 Chem. Pharm. Bull.
Moriguchi I. et al. 1994 Chem. Pharm. Bull.
Lipinski PA. et al. 2001 Adv. Drug. Deliv. Rev.

1.1
Log Po/w (SILICOS-IT)?

SILICOS-IT: Hybrid fragmental/topological method calculated by
FILTER-IT program, version 1.0.2, courtesy of SILICOS-IT, http://www.silicos-it.com

3.5
Consensus Log Po/w?

Consensus Log Po/w: Average of all five predictions

1.95

Water Solubility

Log S (ESOL):?

ESOL: Topological method implemented from
Delaney JS. 2004 J. Chem. Inf. Model.

-2.17
Solubility 0.942 mg/ml ; 0.00682 mol/l
Class?

Solubility class: Log S scale
Insoluble < -10 < Poorly < -6 < Moderately < -4 < Soluble < -2 Very < 0 < Highly

Soluble
Log S (Ali)?

Ali: Topological method implemented from
Ali J. et al. 2012 J. Chem. Inf. Model.

-2.25
Solubility 0.784 mg/ml ; 0.00567 mol/l
Class?

Solubility class: Log S scale
Insoluble < -10 < Poorly < -6 < Moderately < -4 < Soluble < -2 Very < 0 < Highly

Soluble
Log S (SILICOS-IT)?

SILICOS-IT: Fragmental method calculated by
FILTER-IT program, version 1.0.2, courtesy of SILICOS-IT, http://www.silicos-it.com

-2.36
Solubility 0.609 mg/ml ; 0.00441 mol/l
Class?

Solubility class: Log S scale
Insoluble < -10 < Poorly < -6 < Moderately < -4 < Soluble < -2 Very < 0 < Highly

Soluble

Pharmacokinetics

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)
and tested on 415 molecules (test set)
10-fold CV: ACC=0.72 / AUC=0.77
External: ACC=0.88 / AUC=0.94

No
CYP1A2 inhibitor?

Cytochrome P450 1A2 inhibitor: SVM model built on 9145 molecules (training set)
and tested on 3000 molecules (test set)
10-fold CV: ACC=0.83 / AUC=0.90
External: ACC=0.84 / AUC=0.91

Yes
CYP2C19 inhibitor?

Cytochrome P450 2C19 inhibitor: SVM model built on 9272 molecules (training set)
and tested on 3000 molecules (test set)
10-fold CV: ACC=0.80 / AUC=0.86
External: ACC=0.80 / AUC=0.87

No
CYP2C9 inhibitor?

Cytochrome P450 2C9 inhibitor: SVM model built on 5940 molecules (training set)
and tested on 2075 molecules (test set)
10-fold CV: ACC=0.78 / AUC=0.85
External: ACC=0.71 / AUC=0.81

No
CYP2D6 inhibitor?

Cytochrome P450 2D6 inhibitor: SVM model built on 3664 molecules (training set)
and tested on 1068 molecules (test set)
10-fold CV: ACC=0.79 / AUC=0.85
External: ACC=0.81 / AUC=0.87

No
CYP3A4 inhibitor?

Cytochrome P450 3A4 inhibitor: SVM model built on 7518 molecules (training set)
and tested on 2579 molecules (test set)
10-fold CV: ACC=0.77 / AUC=0.85
External: ACC=0.78 / AUC=0.86

No
Log Kp (skin permeation)?

Skin permeation: QSPR model implemented from
Potts RO and Guy RH. 1992 Pharm. Res.

-5.95 cm/s

Druglikeness

Lipinski?

Lipinski (Pfizer) filter: implemented from
Lipinski CA. et al. 2001 Adv. Drug Deliv. Rev.
MW ≤ 500
MLOGP ≤ 4.15
N or O ≤ 10
NH or OH ≤ 5

0.0
Ghose?

Ghose filter: implemented from
Ghose AK. et al. 1999 J. Comb. Chem.
160 ≤ MW ≤ 480
-0.4 ≤ WLOGP ≤ 5.6
40 ≤ MR ≤ 130
20 ≤ atoms ≤ 70

None
Veber?

Veber (GSK) filter: implemented from
Veber DF. et al. 2002 J. Med. Chem.
Rotatable bonds ≤ 10
TPSA ≤ 140

0.0
Egan?

Egan (Pharmacia) filter: implemented from
Egan WJ. et al. 2000 J. Med. Chem.
WLOGP ≤ 5.88
TPSA ≤ 131.6

0.0
Muegge?

Muegge (Bayer) filter: implemented from
Muegge I. et al. 2001 J. Med. Chem.
200 ≤ MW ≤ 600
-2 ≤ XLOGP ≤ 5
TPSA ≤ 150
Num. rings ≤ 7
Num. carbon > 4
Num. heteroatoms > 1
Num. rotatable bonds ≤ 15
H-bond acc. ≤ 10
H-bond don. ≤ 5

1.0
Bioavailability Score?

Abbott Bioavailability Score: Probability of F > 10% in rat
implemented from
Martin YC. 2005 J. Med. Chem.

0.55

Medicinal Chemistry

PAINS?

Pan Assay Interference Structures: implemented from
Baell JB. & Holloway GA. 2010 J. Med. Chem.

0.0 alert
Brenk?

Structural Alert: implemented from
Brenk R. et al. 2008 ChemMedChem

0.0 alert: heavy_metal
Leadlikeness?

Leadlikeness: implemented from
Teague SJ. 1999 Angew. Chem. Int. Ed.
250 ≤ MW ≤ 350
XLOGP ≤ 3.5
Num. rotatable bonds ≤ 7

No; 1 violation:MW<1.0
Synthetic accessibility?

Synthetic accessibility score: from 1 (very easy) to 10 (very difficult)
based on 1024 fragmental contributions (FP2) modulated by size and complexity penaties,
trained on 12'782'590 molecules and tested on 40 external molecules (r2 = 0.94)

2.14

Application In Synthesis of [ 5650-52-2 ]

* 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.

  • Downstream synthetic route of [ 5650-52-2 ]

[ 5650-52-2 ] Synthesis Path-Downstream   1~35

  • 1
  • [ 110-91-8 ]
  • [ 50-00-0 ]
  • [ 5650-52-2 ]
  • 5-morpholin-4-ylmethyl-4,5-dihydro-cyclopenta[<i>b</i>]thiophen-6-one [ No CAS ]
  • 2
  • [ 5650-52-2 ]
  • [ 4750-57-6 ]
  • [ 57311-40-7 ]
  • 3
  • [ 26359-23-9 ]
  • [ 5650-52-2 ]
YieldReaction ConditionsOperation in experiment
1.45 g With aluminum (III) chloride; In 1,2-dichloro-ethane; at 25℃;Reflux; Synthesis of 3: A chloroform solution of 2 (2.00 g, 12.8 mmol) in the presence of a catalytic amount of DMF (0.05 mL) was treated dropwise with thionyl chloride (1.86 mL, 25.6 mmol) under a N2 atmosphere at 25 C. The mixture was heated under reflux for 2 hours. The resulting dark orange solution was cooled, and concentrated in vacuo to give a brown oil. A 1,2-dichloroethane (DCE) solution of the carboxylic acid chloride was added dropwise to a suspension of AlCl3 (1.71 g, 12.8 mmol) in DCE at 25 C. The mixture was stirred overnight at 25 C., then heated under reflux for 2 hours, and afterwards poured into an aqueous solution of HCl (5%). The aqueous phase was extracted with CH2Cl2, dried over Na2SO4, and evaporated. The residue was purified with a short silica pad (CH2Cl2) to afford cyclopenta[b]thiophen-6-one 3 as a white solid upon standing (1.45 g, yield: 82%). 1H NMR (400 MHz, CDCl3): delta (ppm)=2.98-3.00 (m, 2H), 3.02-3.04 (m, 2H), 7.05 (d, J=4.8 Hz, 1H), 7.89 (d, J=4.8 Hz, 1H).
  • 4
  • [ 34824-58-3 ]
  • [ 5650-52-2 ]
  • [ 126983-21-9 ]
  • 5
  • [ 5650-52-2 ]
  • [ 119645-09-9 ]
  • (tert-Butyl-diphenyl-silanyl)-[2-(4H-cyclopenta[b]thiophen-6-yl)-benzyl]-amine [ No CAS ]
  • 9
  • [ 16378-06-6 ]
  • [ 5650-52-2 ]
YieldReaction ConditionsOperation in experiment
30% With methanesulfonic acid; phosphorus pentoxide; at 20℃; for 1h; To a suspension of P2O5 (25.4 g, 179.0 mmol) in methanesulfonic acid (100 mL) was added 3-(thiophen-3-yl)propanoic acid (5.0 g, 32.0 mmol) and the reaction was stirred at room temperature for 1 h. At completion, the reaction was concentrated and the residue was purified by flash chromatography (20-30% EtOAc/hexane eluent) to give 4H-cyclopenta[b]thiophen-6(5H)-one (1.34 g, 30% yield) as a brown solid. 1H NMR (300 MHz, MeOH) delta ppm 8.14 (d, J=4.8 Hz, 1H), 7.17 (d, J=4.8 Hz, 1H), 2.94-3.15 (m, 4H); MS (EI) m/z=139.2 [M+1]+.
0.41 g With phosphorus pentoxide; In methanesulfonic acid; at 20℃; for 1h; Step iii: 4H-cyclopentarblthiophen-6(5H)-one To a 50 mL round bottom flask, were added phosphorous pentoxide (8.5 g, 0.0299 mol) and methanesulfonic acid (17 mL). To the same flask, 3-(thiophen-3-yl)propanoic acid (0.85 g, 0.0054 mol) was added. The reaction mixture was stirred at RT for 1 h. The reaction mixture was quenched with ice cold water and extracted with ethyl acetate. The organic layer was separated, washed with brine, dried over anhydrous sodium sulfate. The solvent was evaporated under reduced pressure to get crude product. The crude product was purified by flash column chromatography using 30 % ethyl acetate in hexane to get the title compound [0.41 g, 55 %]. LC-MS: 139.1 [M+H]+.
  • 10
  • [ 5650-52-2 ]
  • [ 189179-72-4 ]
  • 11
  • [ 5650-52-2 ]
  • [ 189179-80-4 ]
  • 13
  • [ 5650-52-2 ]
  • [ 78-94-4 ]
  • [ 211740-90-8 ]
  • thieno[3',2':8,9]bicyclo[4.3.0]non-1(2)-en-3-one [ No CAS ]
  • spiro[(2-acetyl-1-hydroxy-1-methyl-cyclohexane)-4,5'-(4,5-dihydro-6H-cyclopenta[b]thiophen-6-one)] [ No CAS ]
  • 15
  • [ 5650-52-2 ]
  • [ 827609-10-9 ]
  • 16
  • [ 5650-52-2 ]
  • [ 74-88-4 ]
  • [ 13196-30-0 ]
  • 17
  • [ 21980-45-0 ]
  • [ 5650-52-2 ]
  • 4,5-dihydro-4-(trimethylsilyl)cyclopenta[b]thiophen-6-one [ No CAS ]
  • 18
  • [ 5650-52-2 ]
  • [ 14470-51-0 ]
YieldReaction ConditionsOperation in experiment
71% Preparation 3; 5,6-Dihydro-4H-thieno[2,3-c]pyridin-7-one; Prepare the title compound by essentially following procedures as found in Aparajithan, K.; Thompson, A. C; Sam, J. J. Heterocyclic. Chem. 1966, 3, 466. Dissolve <strong>[5650-52-2]4,5-dihydro-cyclopenta[b]thiophen-6-one</strong> (Bonini, B. F.; et. al. Eur. J. Org.Chem. 2004, 4442 and references cited therein) (0.658 g, 4.77 mmol) in MeOH (50 mL), and add hydroxylamine hydrochloride (0.365 g, 5.25 mmol) and NaOAc (2.35 g, 28.62 mmol). Stir the reaction at RT overnight. Remove the organic solvent in vacuo, and treat the residue with EtOAc (60 mL). Filter through silica gel, wash with EtOAc, and concentrate. Treat the residue with PPA (30 g), heating to 130 0C in an oil bath and with occasional stirring over 30 min. Allow the reaction to cool to RT and pour into ice water (100 mL). Extract with CH2Cl2 (3 x 150 mL). Wash the combined organic layers with 0.1 M NaOH (100 mL), dry over Na2SO4 and concentrate. Purify the material by chromatography, eluting with 75%EtOAc/hexanes to give 0.521 g (71%) of the title compound. MS/ES m/z 154.1 [M+H]+.
71% With hydroxylamine hydrochloride; sodium acetate; In methanol; at 20℃;Product distribution / selectivity; Preparation 19; 5,6-Dihydro-4H-thieno[2,3-c]pyridin-7-one; Prepare the title compound by essentially following procedures as found in Aparajithan, K.; Thompson, A. C; Sam, J. J. Heterocyclic. Chem. 1966, 3, 466. <n="34"/>Dissolve <strong>[5650-52-2]4,5-dihydro-cyclopenta[b]thiophen-6-one</strong> (Bonini, B. F.; et. al. Eur. J. Org. Chem. 2004, 4442 and references cited therein) (0.658 g, 4.77 mmol) in MeOH (50 mL), and add hydroxylamine hydrochloride (0.365 g, 5.25 mmol) and NaOAc (2.35 g, 28.62 mmol). Stir the reaction at RT overnight. Remove the organic solvent in vacuo, and treat the residue with EtOAc (60 mL). Filter through silica gel, wash with EtOAc, and concentrate. Treat the residue with PPA (30 g), heating to 130 0C in an oil bath and with occasional stirring over 30 min. Allow the reaction to cool to RT and pour into ice water (100 mL). Extract with CH2CI2 (3 x 150 mL). Wash the combined organic layers with 0.1 M NaOH (100 mL), dry over Na2SO4 and concentrate. Purify the material by chromatography, eluting with 75%EtOAc/hexanes to give the title compound (0.521 g, 71%). MS/ES m/z 154.1 [M+H]+
55% A solution of <strong>[5650-52-2]4H-cyclopenta[b]thiophen-6(5H)-one</strong> (1.34 g, 9.7 mmol), hydroxylamine HCl (1.45 g, 20.8 mmol) and NaOAc (7.3 g, 89.0 mmol) in MeOH (150 mL) was stirred overnight at room temperature. The reaction was then concentrated under reduced pressure, taken up in EtOAc (100 mL) and filtered over a plug of silica gel, eluting with EtOAc. The filtrate was concentrated, taken up in polyphosphoric acid (100 g) and heated for 2 h at 130 C. Upon completion, the reaction was quenched by pouring over ice water (100 mL). The aqueous mixture was extracted with DCM (2×100 mL) and the combined extracts were washed with 0.1 M NaOH (100 mL), dried over Na2SO4, then filtered and concentrated. 5,6-dihydrothieno[2,3-c]pyridin-7(4H)-one (837 mg, 55% yield) was isolated as a white solid after purification by flash chromatography over silica gel (20-30% EtOAc/hexane eluent). 1H NMR (300 MHz, MeOH) delta ppm 7.69 (d, J=5.0 Hz, 1H), 7.06 (d, J=5.0 Hz, 1H), 3.57 (t, J=7.1 Hz, 2 H), 2.94 (t, J=7.1 Hz, 2H); MS (EI) m/z=154.2 [M+1]+.
Step iv: 5,6-dihydrothieno[2,3-clpyridin-7(4H)-one To a 100 mL round bottom flask, were added <strong>[5650-52-2]4H-cyclopenta[b]thiophen-6(5H)-one</strong> (0.4 g, 0.0029 mol) and methanol (30 mL). To the same flask, hydroxylamine hydrochloride (0.22 g, 0.003 mol) and sodium acetate (1.4 g, 0.017 mol) were added. The reaction mixture was stirred at RT for 12 h. The volatiles were evaporated under reduced pressure to get residue. The residue was stirred with ethyl acetate and filtered through a pad of silica gel. The filtrate was evaporated under reduced pressure to get residue. The residue was treated with polyphosphoric acid ( 18 g) at 130 C for 30 min, with occasional stirring. The reaction mixture was cooled to RT, poured onto ice cold water and extracted with dichloromethane. The organic layer was separated, washed with aqueous 0.1 M sodium hydroxide followed by brine and dried over anhydrous sodium sulfate. The organic layer was evaporated under reduced pressure to get crude product [0.25 g, 57 %]. The crude product was used in next step without any further purification. LC-MS: 154.0 [M+H]+.

  • 19
  • [ 98-03-3 ]
  • (S)-(Fmoc-amino)-(4-fluoro-phenyl)-acetic acid on Wang resin [ No CAS ]
  • [ 5650-52-2 ]
  • 20
  • [ 5650-52-2 ]
  • [ 827609-16-5 ]
  • 21
  • [ 5650-52-2 ]
  • (S)-5-hydroxy-4,5-dihydro-6H-cyclopenta[b]thiophen-6-one [ No CAS ]
  • 22
  • [ 5650-52-2 ]
  • [ 827609-13-2 ]
  • 23
  • [ 5650-52-2 ]
  • [ 827609-21-2 ]
  • 24
  • [ 5650-52-2 ]
  • trans-(5R,6S)-6-amino-5,6-dihydro-4H-cyclopenta[b]thiophen-5-ol [ No CAS ]
  • 25
  • [ 5650-52-2 ]
  • [ 827609-17-6 ]
  • 26
  • [ 5650-52-2 ]
  • [ 828918-23-6 ]
  • 27
  • [ 5650-52-2 ]
  • (R)-5-hydroxy-4,5-dihydro-6H-cyclopenta[b]thiophen-6-one O-methyloxime [ No CAS ]
  • 28
  • [ 5650-52-2 ]
  • (5R,6S)-6-amino-5-methyl-5,6-dihydro-4H-cyclopenta[b]thiophen-5-ol [ No CAS ]
  • 29
  • [ 5650-52-2 ]
  • [ 827609-22-3 ]
  • 30
  • [ 5650-52-2 ]
  • (R)-5-hydroxy-5-methyl-4,5-dihydro-6H-cyclopenta[b]thiophen-6-one O-methyloxime [ No CAS ]
  • 31
  • [ 5650-52-2 ]
  • [ 827609-33-6 ]
  • 32
  • [ 5650-52-2 ]
  • [ 827609-34-7 ]
  • 33
  • [ 5650-52-2 ]
  • (3aR,7aR)-2-phenyl-7,7a-dihydro-3aH-thieno[3',2':4,5]cyclopenta[1,2-d][1,3]oxazole [ No CAS ]
  • 34
  • [ 5650-52-2 ]
  • (R,R)-7a-methyl-2-phenyl-7,7a-dihydro-3aH-thieno[3',2':4,5]cyclopenta[1,2-d][1,3]oxazole [ No CAS ]
  • 35
  • [ 5650-52-2 ]
  • [ 827609-35-8 ]
 

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