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Chemical Structure| 53554-29-3 Chemical Structure| 53554-29-3

Structure of 53554-29-3

Chemical Structure| 53554-29-3

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Product Details of [ 53554-29-3 ]

CAS No. :53554-29-3
Formula : C8H10N2O3S
M.W : 214.24
SMILES Code : O=C(C1=CN=C(SC)NC1=O)OCC
MDL No. :MFCD00023234
InChI Key :HDIWKNXVBQPJCO-UHFFFAOYSA-N
Pubchem ID :239049

Safety of [ 53554-29-3 ]

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

Computational Chemistry of [ 53554-29-3 ] Show Less

Physicochemical Properties

Num. heavy atoms 14
Num. arom. heavy atoms 6
Fraction Csp3 0.38
Num. rotatable bonds 4
Num. H-bond acceptors 4.0
Num. H-bond donors 1.0
Molar Refractivity 52.67
TPSA ?

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

97.35 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

0.65
Log Po/w (WLOGP)?

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

0.67
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.

0.38
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

1.77
Consensus Log Po/w?

Consensus Log Po/w: Average of all five predictions

1.01

Water Solubility

Log S (ESOL):?

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

-1.63
Solubility 5.01 mg/ml ; 0.0234 mol/l
Class?

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

Very soluble
Log S (Ali)?

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

-2.27
Solubility 1.15 mg/ml ; 0.00537 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

-2.55
Solubility 0.609 mg/ml ; 0.00284 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

No
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

No
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.

-7.15 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

0.0
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)

2.01

Application In Synthesis of [ 53554-29-3 ]

* 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 [ 53554-29-3 ]

[ 53554-29-3 ] Synthesis Path-Downstream   1~35

  • 1
  • [ 124-40-3 ]
  • [ 53554-29-3 ]
  • [ 54127-88-7 ]
  • 2
  • [ 74-89-5 ]
  • [ 53554-29-3 ]
  • [ 84331-97-5 ]
  • 4
  • [ 2986-19-8 ]
  • [ 87-13-8 ]
  • [ 53554-29-3 ]
YieldReaction ConditionsOperation in experiment
99.7% S1, methylthiourea sulfate(75.2g, 0.4mol)Add to a mass fraction of 16% NaOH (250 mL, 1.18 mol) and stir for 30 min.Then diethyl ethoxymethylenemalonate (103.4 g, 0.48 mol)Soluble in 160mL of ethanol and slowly drip into the reaction solution,After the completion of the dropwise addition, the reaction was carried out at room temperature for 10 hours, when a large amount of white solid precipitated,Pumping,Washed,Drying in vacuo gave a white solid (84.7 g, 99.7%);
87.6% With sodium ethanolate; In ethanol; at 20℃; for 3h; To a solution of 2-ethoxymethylenemalonic acid diethyl ester (59.0 g, 273 mmol) in EtOH (300 mL) was added 2-methyl-isothiourea (41.5 g, 150 mmol) in an ice-H2O bath. An EtOHic solution of EtONa (2M, 300 mL) was added dropwise maintaining the reaction temperature under 5 C. The mixture was warmed to RT and stirred for 3h. After standing overnight, the solvent was removed under reduced pressure and the residue was dissolved in H2O (800 mL) at 0 C. The solution was acidified to pH 3 with cone. HCl and the precipitate collected by filtration and air-dried to yield 4-hydroxy-2- methylsulfanyl-pyrimidine-5-carboxylic acid ethyl ester as a white solid (50.8 g, 87.6% yield).
  • 5
  • [ 53554-29-3 ]
  • [ 5909-24-0 ]
YieldReaction ConditionsOperation in experiment
92% With thionyl chloride; at 60℃; for 3h; Ethyl 4-hydroxy-2-methylthiopyrimidine-5-carboxylate (30 g, 140 mmol) was added to a three-vial flask.Add 20g of thionyl chloride (168mmol)The reaction was heated to 60C for 3 hours. After the reaction was complete, it was cooled to 0-5C. 100 ml of water was added and crystallized at 0-5C for 1-2 hours. The mixture was filtered and vacuum dried at 50C to give 30.1 g of white solid product. Yield 92 %, pure 99.8%,
77% With N,N-diethylaniline; trichlorophosphate; for 5h;Heating / reflux; A mixture of 4-hydroxy-2-(methylsulfanyl)pyrimidine-5-carboxylic acid ethyl ester (50 g, 0.234 mmol), POC13 (110 mL, 1.17 mmol) and diethylamide (70 mL, 0.28 mmol) was refluxed for 5h. The solvent was removed under vacuum and the residue was dissolved in ice H2O and cautiously neutralized with aqueous NaHCO3. After extraction with EtOAc (3x400 mL), the organic extracts were combined, dried and concentrated to give 4-chloro-2- (methylsulfanyl)pyrimidine-5-carboxylic acid ethyl ester as a yellow solid (42 g, 77% yield).
77% With trichlorophosphate; In acetonitrile; for 6h;Reflux; the ethyl 4-hydroxy-2-methylsulfanyl-5-carboxylate obtained in the step S1 (55.6 g, 0.26 mol) was added to 150 mL of acetonitrile.Stir for 25min,Slowly add 135 mL of POCl3 to the reaction solution.After the addition is completed,The reaction solution was heated to reflux for 6 h.Then the reaction solution is slightly cold,The reaction solution was concentrated and the residue was poured into an ice water mixture and stirred.Adjust the pH of the reaction solution to neutral with saturated sodium bicarbonate solution.When a large amount of white solid precipitates, suction filtration is performed.The filter cake is used in turn (135mL × 3),Anhydrous ethanol (30 mL × 3) was rinsed.Then dried in vacuo to give a white solid (47.8 g, 77%);
40% With trichlorophosphate; at 10 - 65℃; for 7h; Step 2. Preparation of 4-chloro-2-methylsulfanyl-pyrimidine-5-carboxylic acid ethyl ester (B19-2): Neat POCl3 (120 mL) was cooled to 10 C. and treated portion-wise over 4 hours with B19-1 (50 g, 232 mmol) without exceeding a temperature of 25 C. The mixture was then heated at 65 C. After 3 hours the mixture was cooled to 10 C., poured into crushed ice (350 g), treated drop-wise with water (676 mL) under vigorous stirring. The resultant solids were collected and dried under reduced pressure to provide B19-2 as a pale yellow solid. Yield: 22 g, 40%. 1H NMR (CDCl3): delta 8.95 (s, 1H), 4.44 (q, 2H), 2.62 (s, 3H) and 1.42 (t, 3H).
With trichlorophosphate; In toluene; at 55 - 105℃; for 4h; The wet solid obtained in step-a) was dissolved in toluene (800 ml) by heating the reaction mixture to 85-90C. The reaction mixture was kept aside for 15 minutes and both the organic and aqueous layers were separated. The organic layer was heated to 110-115C to remove water from it. Cooled the reaction mixture to 55-60C. Phosphoryl chloride (106.36 g) was added to the organic layer at 55-60C, heated the reaction mixture to 100-105C and then stirred for 4 hours. The reaction mixture was cooled to 0-5C and then quenched with water at a temperature below 40C. The reaction mixture was heated to 40-45 C and separated both the organic and aqueous layers. The organic layer was washed with 5% sodium carbonate solution followed by water. The organic layer containing the title compound is taken to the next step.

  • 7
  • [ 53554-29-3 ]
  • 4-(3-methyl-2,5-dioxo-2,5-dihydro-pyrrol-1-ylamino)-2-methylsulfanyl-pyrimidine-5-carboxylic acid ethyl ester [ No CAS ]
  • 8
  • [ 53554-29-3 ]
  • [ 72419-31-9 ]
  • 9
  • [ 53554-29-3 ]
  • [ 54127-87-6 ]
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  • [ 72411-80-4 ]
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  • [ 84332-25-2 ]
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  • [ 72418-34-9 ]
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  • [ 72411-90-6 ]
  • 15
  • [ 53554-29-3 ]
  • [ 72419-45-5 ]
  • 16
  • [ 53554-29-3 ]
  • [ 72418-39-4 ]
  • 17
  • [ 53554-29-3 ]
  • [ 84332-24-1 ]
  • 18
  • [ 53554-29-3 ]
  • [ 72418-37-2 ]
  • 19
  • [ 53554-29-3 ]
  • [ 72412-04-5 ]
  • 20
  • [ 496-15-1 ]
  • [ 53554-29-3 ]
  • [ 334703-29-6 ]
YieldReaction ConditionsOperation in experiment
77% In ethanol; Reference Example 2-1 ethyl 4-hydroxy-2-(2,3-dihydro-1H-indol-1-yl)-5-pyrimidinecarboxylate To a solution of indoline (3.58 g, 30 mmol) in ethanol (50 mL) was added <strong>[53554-29-3]ethyl 2-methylthio-4-hydroxypyrimidine-5-carboxylate</strong> (5.35 g, 25 mmol) and the mixture was heated under reflux for 18 h. The reaction mixture was allowed to cool to room temperature and the precipitated crystals were collected by filtration. The crystals were washed several times with cold ethanol and dried to give the title compound (5.5 g, 77%) as crystals.
  • 21
  • [ 14527-26-5 ]
  • [ 87-13-8 ]
  • [ 53554-29-3 ]
YieldReaction ConditionsOperation in experiment
61% With hydrogenchloride; sodium hydroxide; In ethanol; Reference Example 1 ethyl 2-methylthio-4-hydroxypyrimidine-5-carboxylate To a 4N sodium hydroxide solution (200 mL) was added S-methylisothioureasulfate (55.6 g, 0.2 mol), and after stirring for 30 min, at room temperature a solution of diethyl ethoxymethylenemalonate (80.8 mL, 0.35 mol) in ethanol (100 mL) was dropwise added slowly over 1 h. After stirring for 18 h, the precipitated crystals were collected by filtration, washed several times with cold ethanol and the obtained crystals were added to 1N hydrochloric acid (300 mL). The mixture was stirred for 30 min and the precipitated crystals were collected by filtration, washed several times with cold water and dried with heating under vacuum to give the title compound (26 g, 61%) as crystals. 1H-NMR (delta ppm, CDCl3): 1.42 (3H, t, J=7.0 Hz), 2.60 (3H, s), 4.44 (2H, q, J=7.0 Hz), 8.76 (1H, s), 13.25 (1H, br)
  • 22
  • [ 2916-68-9 ]
  • [ 53554-29-3 ]
  • [ 866884-82-4 ]
  • 23
  • [ 53554-29-3 ]
  • C13H10Cl3N3O2 [ No CAS ]
  • 24
  • [ 53554-29-3 ]
  • [ 1421766-31-5 ]
  • 25
  • [ 53554-29-3 ]
  • [ 1421766-32-6 ]
  • 26
  • [ 53554-29-3 ]
  • [ 1421766-33-7 ]
  • 27
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  • [ 1421766-34-8 ]
  • 28
  • [ 53554-29-3 ]
  • [ 1421766-35-9 ]
  • 29
  • [ 53554-29-3 ]
  • C19H23Cl2N5O2 [ No CAS ]
  • 30
  • [ 53554-29-3 ]
  • C16H16Cl2N4O3 [ No CAS ]
  • 31
  • [ 53554-29-3 ]
  • C17H17Cl2N5O3 [ No CAS ]
  • 32
  • [ 53554-29-3 ]
  • C15H16Cl2N4O3 [ No CAS ]
  • 33
  • [ 53554-29-3 ]
  • C15H14Cl2N4O4 [ No CAS ]
  • 34
  • [ 53554-29-3 ]
  • [ 1421766-21-3 ]
  • 35
  • [ 53554-29-3 ]
  • [ 1421766-22-4 ]
 

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