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[ CAS No. 5409-39-2 ] {[proInfo.proName]}

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3d Animation Molecule Structure of 5409-39-2
Chemical Structure| 5409-39-2
Chemical Structure| 5409-39-2
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Product Details of [ 5409-39-2 ]

CAS No. :5409-39-2 MDL No. :MFCD00092011
Formula : C5H4ClN3O2 Boiling Point : -
Linear Structure Formula :- InChI Key :GILTXHIJUUIMPI-UHFFFAOYSA-N
M.W : 173.56 Pubchem ID :224168
Synonyms :

Calculated chemistry of [ 5409-39-2 ]      Expand+

Physicochemical Properties

Num. heavy atoms : 11
Num. arom. heavy atoms : 6
Fraction Csp3 : 0.0
Num. rotatable bonds : 1
Num. H-bond acceptors : 3.0
Num. H-bond donors : 1.0
Molar Refractivity : 42.47
TPSA : 84.73 Ų

Pharmacokinetics

GI absorption : High
BBB permeant : No
P-gp substrate : No
CYP1A2 inhibitor : No
CYP2C19 inhibitor : No
CYP2C9 inhibitor : No
CYP2D6 inhibitor : No
CYP3A4 inhibitor : No
Log Kp (skin permeation) : -6.29 cm/s

Lipophilicity

Log Po/w (iLOGP) : 0.82
Log Po/w (XLOGP3) : 1.51
Log Po/w (WLOGP) : 1.23
Log Po/w (MLOGP) : -0.29
Log Po/w (SILICOS-IT) : -0.77
Consensus Log Po/w : 0.5

Druglikeness

Lipinski : 0.0
Ghose : None
Veber : 0.0
Egan : 0.0
Muegge : 1.0
Bioavailability Score : 0.55

Water Solubility

Log S (ESOL) : -2.2
Solubility : 1.08 mg/ml ; 0.00624 mol/l
Class : Soluble
Log S (Ali) : -2.9
Solubility : 0.22 mg/ml ; 0.00127 mol/l
Class : Soluble
Log S (SILICOS-IT) : -1.66
Solubility : 3.81 mg/ml ; 0.0219 mol/l
Class : Soluble

Medicinal Chemistry

PAINS : 0.0 alert
Brenk : 2.0 alert
Leadlikeness : 1.0
Synthetic accessibility : 2.09

Safety of [ 5409-39-2 ]

Signal Word:Warning Class:N/A
Precautionary Statements:P261-P305+P351+P338 UN#:N/A
Hazard Statements:H315-H319-H335 Packing Group:N/A
GHS Pictogram:

Application In Synthesis of [ 5409-39-2 ]

* 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.

  • Upstream synthesis route of [ 5409-39-2 ]
  • Downstream synthetic route of [ 5409-39-2 ]

[ 5409-39-2 ] Synthesis Path-Upstream   1~21

  • 1
  • [ 5409-39-2 ]
  • [ 273-21-2 ]
Reference: [1] Journal of the American Chemical Society, 1949, vol. 71, p. 1885
  • 2
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  • [ 75-65-0 ]
  • [ 40851-95-4 ]
Reference: [1] Patent: US5624935, 1997, A,
  • 3
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  • [ 78607-32-6 ]
Reference: [1] Journal of the Chemical Society, 1952, p. 2042,2044
  • 4
  • [ 5409-39-2 ]
  • [ 408314-14-7 ]
Reference: [1] Journal of the American Chemical Society, 1949, vol. 71, p. 1885
  • 5
  • [ 5409-39-2 ]
  • [ 97941-89-4 ]
YieldReaction ConditionsOperation in experiment
49% With hydrogenchloride; tin(ll) chloride In water at 80 - 100℃; for 0.5 h; 5-Chloro-3-nitropyridin-2-amine (2000.0 mg, 11.52 mmol) and SnCl2 (8740.0 mg, 46.09 mmol) were added in conc. HCl (20.0 mL) and then stirred at 80-100° C. for 0.5 hour. The reaction mixture was neutralized with saturated 1N NaOH aqueous solution (pH=7), and it was then extracted with EtOAc (200.0 mL). The organic layer was washed with brine, dried over anhydrous Na2SO4, filtered and then distilled under reduced pressure. The residue was purified by column chromatography (n-Hex:EtOAc=90:10) on silica. The fractions containing the product were collected and evaporated to obtain ivory solid compound of 5,6-dichloropyridin-2,3-diamine (1000.0 mg, 49percent). [0523] 1H-NMR (300 MHz, DMSO-d6); δ: 6.80 (s, 1H), 6.04 (s, 2H), 5.11 (s, 2H)
Reference: [1] Patent: US2014/315888, 2014, A1, . Location in patent: Paragraph 0522-0523
[2] Journal of Organic Chemistry, 1959, vol. 24, p. 1455,1459
  • 6
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  • [ 21427-62-3 ]
YieldReaction ConditionsOperation in experiment
60%
Stage #1: With hydrogenchloride In water at -10℃;
Stage #2: With sodium nitrite In water at 0℃; for 2 h;
Stage #3: With sodium hydroxide In water at -10 - 0℃;
5-Chloro-3-nitro-2-pyridinamine (5.0 g, 28.8 mmol) was dissolved in cone. HCI (50 mL) and cooled to -10 0C in an ice-salt bath. Sodium nitrite (4.97 g, 72 mmol) in water (10 mL) was added dropwise to the cooled solution over 1 h and stirred at 0 °C for 1 h longer. The reaction mixture was cooled to -10 0C in an ice-salt bath and neutralized with 2N sodium hydroxide to pH 9.0 keeping the temperature below 0 0C. EtOAc (150 mL) was added and the mixture was filtered. The organic layer was separated, dried over sodium sulfate and concentrated in vacuo to afford the title compound as 3.36 g (60percent yield) of a light brown solid; 1H NMR (cfe-DMSO) δ 8.62 (d, 1 H, 2.5 Hz), 8.26 (d, 1 H, 2.2 Hz).
58.5% With hydrogenchloride; sodium nitrite In water at -10 - 0℃; for 1.5 h; 5-chloro-3-nitropyridine-2-amine 10.0g of (57.6 mmol) was dissolved in concentrated hydrochloric acid 100 mL, and stirred at -10 ° C.. Here, sodium nitrite 9.94g of (144 mmol) Yuki dropwise over 30 minutes a liquid obtained by dissolving water 20 mL, after the addition, the mixture was stirred 1 hour at 0 ° C.. By adding 1N aqueous sodium hydroxide solution to the reaction solution and pH 9, and extracted with ethyl acetate. Insolubles were removed by filtration, the organic layer was washed with saturated brine, and dried over anhydrous magnesium sulfate. Filtered and the filtrate was evaporated under reduced pressure to give the title compound 6.50g of (58.5percent yield) as a solid.
58.5%
Stage #1: With hydrogenchloride; sodium nitrite In water at -10℃; for 0.5 h;
Stage #2: With sodium hydroxide In water at 0℃; for 1 h;
5-chloro-3-nitropyridine-2-amine 10.0g of (57.6 mmol) was dissolved in concentrated hydrochloric acid 100 mL, and stirred at -10 ° C.. Here, sodium nitrite 9.94g of (144 mmol) add dropwise over 30 minutes a liquid obtained by dissolving water 20 mL, after the addition, the mixture was stirred 1 hour at 0 ° C.. By adding 1N aqueous sodium hydroxide solution to the reaction solution and pH 9, and extracted with ethyl acetate. Insolubles were removed by filtration, the organic layer was washed with saturated brine, and dried over anhydrous magnesium sulfate. Filtered and the filtrate was evaporated under reduced pressure to give the title compound 6.50g of (58.5percent yield) as a solid.
58.5% With hydrogenchloride; sodium nitrite In water at -10 - 0℃; for 1.5 h; (Step 1)
2,5-Dichloro-3-nitropyridine
5-Chloro-3-nitropyridin-2-amine (10.0 g, 57.6 mmol) was dissolved in concentrated hydrochloric acid (100 mL), and the solution was stirred at -10°C. A solution of sodium nitrite (9.94 g, 144 mmol) dissolved in water (20 mL) was added dropwise thereto over 30 minutes.
After the completion of the addition, the mixture was stirred at 0°C for 1 hour.
The pH of the reaction solution was adjusted to 9 by the addition of a 1 N aqueous sodium hydroxide solution, followed by extraction with ethyl acetate.
Insoluble matter was removed by filtration, and the organic layer was washed with saturated saline and then dried over anhydrous magnesium sulfate.
After filtration, the solvent in the filtrate was distilled off under reduced pressure to obtain the title compound (6.50 g, yield: 58.5percent) as a solid.
1H-NMR (CDCl3) δ: 8.60 (1H, d, J = 2.9 Hz), 8.24 (1H, d, J = 2.6 Hz).

Reference: [1] Patent: WO2007/67875, 2007, A2, . Location in patent: Page/Page column 15
[2] Patent: JP2016/56134, 2016, A, . Location in patent: Paragraph 0165; 0166; 0167
[3] Patent: JP2016/56133, 2016, A, . Location in patent: Paragraph 0158; 0159
[4] Patent: EP3109239, 2016, A1, . Location in patent: Paragraph 0189
[5] Journal of the Chemical Society, 1952, p. 2042,2044
[6] Bioorganic and Medicinal Chemistry, 2004, vol. 12, # 10, p. 2625 - 2637
[7] Patent: US2007/167435, 2007, A1, . Location in patent: Page/Page column 29
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  • [ 21427-61-2 ]
  • [ 21427-62-3 ]
Reference: [1] Bioorganic and Medicinal Chemistry, 2004, vol. 12, # 10, p. 2625 - 2637
  • 8
  • [ 5409-39-2 ]
  • [ 75806-86-9 ]
YieldReaction ConditionsOperation in experiment
73% With hydrogen bromide; bromine; sodium nitrite In water at 0 - 20℃; for 1 h; To a solution of intermediate 32a (10.0 g, 57.6 mmol) in HBr [(31 .0 mL (100percent), 286.4 mmol)] at 0 00 sodium nitrite (13.8 g, 199.9 mmol) was added drop wise. To the stirred solution Br2 (10.0 mL, 197.1 mmol) was added in water and stirred at room temperature for 1 h. The reaction mixture was basified with NaHCO3 solution (pH=7) and extracted with ethyl acetate, washed with water, and dried over anhydrousNa2SO4 The solvent was removed under vacuo to yield the title product (10.0 g,73.0percent) as a yellow solid.
73% With hydrogen bromide; bromine; sodium nitrite In water at 0 - 20℃; for 1 h; To a solution of intermediate 32a (10.0 g, 57.6 mmol) in HBr [(31.0 mL (100percent), 286.4 mmol)] at 0 00, sodium nitrite (13.8 g, 199.9 mmol) was added drop wise. To the stirred solution Br2 (10.0 mL, 197.1 mmol)in water was added and stirred at roomtemperature for 1 h. The reaction mixture was basified with NaHCO3 solution (PH=7) and extracted with ethyl acetate, washed with water, and dried over anhydrous Na2SO4 The solvent was removed under vacuo to yield the title product (10.0 g, 73.0percent) as a yellow solid.
51.5% With sodium hydroxide; hydrogen bromide; bromine; sodium nitrite In ethanol; water 2-Bromo-5-chloro-3-nitropyridine (103)
To a stirred, ice bath cooled solution of HBr (48percent, 214 mL, d=1.49, 1.89 mol) was added 2-amino-5-chloro-3-nitropyridine (2) (66.0 g, 376 mmol).
The mixture was stirred until the internal temperature was less than 0° C., and then bromine (65 mL, d=3.102, 1.3 mol) was added dropwise.
The resulting orange mixture was stirred at a temperature below 0° C. A solution of NaNO2 (91.3 g, 1.32 mol, used as received) in water (125 mL) was added slowly to the mixture so as to maintain the internal temperature below 0° C.
The mixture was stirred for an additional 45 min at below 0° C., and then NaOH (139.3 g, 3.482 mol) in water (200 mL) was slowly added to the mixture to maintain the internal temperature below 20° C.
The mixture was stirred at below 20° C. for an additional hour, and then gravity filtered.
The recovered brown solid was dried at 25° C. under vacuum for 6 h.
It was purified by recrystalization from 95percent ethanol to obtain 103 as a yellow solid (46.0 g, 51.5percent), mp 68°-73° C. (Lit., 75° C., Berrie et al., J. Chem. Soc. 2042 (1952)); 1 H NMR (CDCl3): δ8.15 (d, J=2.1 Hz, 1H), 8,57 (d, J=2.1 Hz, 1H).
Reference: [1] Patent: WO2014/202580, 2014, A1, . Location in patent: Page/Page column 100
[2] Patent: WO2014/202528, 2014, A1, . Location in patent: Page/Page column 97
[3] Synthetic Communications, 2012, vol. 42, # 19, p. 2791 - 2796
[4] Bioorganic and Medicinal Chemistry, 2001, vol. 9, # 8, p. 2061 - 2071
[5] Patent: US5801183, 1998, A,
  • 9
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  • [ 181123-11-5 ]
Reference: [1] Bioorganic and Medicinal Chemistry, 2001, vol. 9, # 8, p. 2061 - 2071
  • 10
  • [ 1072-98-6 ]
  • [ 5409-39-2 ]
YieldReaction ConditionsOperation in experiment
67%
Stage #1: at 55℃; for 1.25 h;
Stage #2: With sodium hydroxide In water
To a mixture of 2-amino-5-chloropyridine (2.57 g, 20.0 mmol) and sulfuric acid (6.30 ml), huming HNO3 (0.860 ml, 21.1 mmol) was added dropwise over 15 minutes at 55 °C and stirred at 55 "C for 1 hour. After cooling, the reaction mixture was poured into ice-water (60 g) and neutralized with aqueous NaOH solution (pH = 11). The precipitated material was collected, washed with H2O and dried under reduced pressure at 50 0C to give 5-chloro-3-nitropyridin-2-amine (2.31 g, 67 percent, yellow solid).
51%
Stage #1: at 0 - 50℃; for 1 h;
To a 250 mL 3 necked RK flask charged with conc.H2S04 (30 mL) at 0CC, 5 chloropyridin-2-amine (12.5 g) was added portion wise and allowed to stir for 1 h and heated at 50 00 to dissolve starting material completely. Then, conc. HNO3 (8 mL) was added drop wise through addition funnel. The reaction was monitored by every 10 minutes. After completion, 40percent sodium hydroxide solution (pH=6-7) was added,the product was extracted with ethyl acetate, washed with water, and dried over anhydrous Na2SO4. The solvent was removed under vacuo to yield the product (11 .0 g, 51.0percent) as a pale green solid. LCMS: (M-H) = 172.9
51%
Stage #1: at 0 - 50℃; for 1 h;
To a 250 mL 3 necked RK flask charged with conc.H2S04 (30 mL) at 000, 5 chloropyridin-2-amine (12.5 g) was added portion wise and solution was allowed to stir for 1 h and heated at 50 00 to dissolve starting material completely. Then, conc. HNO3 (8 mL) was added drop wise to the resulting solution through addition funnel. The reaction was monitored at every 10 minutes. After completion, 40percent sodiumhydroxide solution (PH=6-7) was added, the product was extracted with ethyl acetate, washed with water, and dried over anhydrous Na2SO4. The solvent was removed under vacuo to yield the product (11.0 g, 51.0percent) as a pale green solid. LOMS: (M-H) = 172.9
Reference: [1] Synthetic Communications, 2012, vol. 42, # 19, p. 2791 - 2796
[2] Patent: WO2008/8398, 2008, A2, . Location in patent: Page/Page column 369
[3] Bioorganic and Medicinal Chemistry, 2001, vol. 9, # 8, p. 2061 - 2071
[4] New Journal of Chemistry, 2015, vol. 39, # 5, p. 3936 - 3947
[5] Bioorganic and Medicinal Chemistry Letters, 1997, vol. 7, # 6, p. 669 - 674
[6] Journal of Medicinal Chemistry, 1997, vol. 40, # 22, p. 3679 - 3686
[7] Patent: WO2014/202580, 2014, A1, . Location in patent: Page/Page column 100
[8] Patent: WO2014/202528, 2014, A1, . Location in patent: Page/Page column 96
  • 11
  • [ 1072-98-6 ]
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Reference: [1] Patent: US5801183, 1998, A,
  • 12
  • [ 1072-98-6 ]
  • [ 5409-39-2 ]
Reference: [1] Patent: US5620978, 1997, A,
  • 13
  • [ 1072-98-6 ]
  • [ 5409-39-2 ]
  • [ 6945-68-2 ]
Reference: [1] Patent: US5624935, 1997, A,
  • 14
  • [ 71090-35-2 ]
  • [ 5409-39-2 ]
Reference: [1] Bioorganic and Medicinal Chemistry, 2004, vol. 12, # 10, p. 2625 - 2637
  • 15
  • [ 31396-27-7 ]
  • [ 5409-39-2 ]
Reference: [1] Acta Chimica Hungarica, 1986, vol. 121, # 4, p. 333 - 338
[2] Acta Chimica Hungarica, 1986, vol. 121, # 4, p. 333 - 338
  • 16
  • [ 31396-27-7 ]
  • [ 7664-93-9 ]
  • [ 5409-39-2 ]
Reference: [1] Zhurnal Russkago Fiziko-Khimicheskago Obshchestva, 1928, vol. 60, p. 689[2] Chem. Zentralbl., 1928, vol. 99, # II, p. 1671
  • 17
  • [ 1072-98-6 ]
  • [ 7664-93-9 ]
  • [ 7697-37-2 ]
  • [ 5409-39-2 ]
Reference: [1] Yakugaku Zasshi, 1952, vol. 72, p. 431[2] Chem.Abstr., 1953, p. 6404
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  • [ 6945-68-2 ]
Reference: [1] Patent: US5624935, 1997, A,
  • 19
  • [ 5409-39-2 ]
  • [ 21427-61-2 ]
Reference: [1] Journal of the American Pharmaceutical Association (1912-1977), 1949, vol. 38, p. 70
[2] Journal of the Chemical Society, 1951, p. 2590,2593
  • 20
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  • [ 27330-35-4 ]
Reference: [1] Bioorganic and Medicinal Chemistry, 2001, vol. 9, # 8, p. 2061 - 2071
  • 21
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  • [ 203794-33-6 ]
Reference: [1] ACS Medicinal Chemistry Letters, 2018, vol. 9, # 1, p. 39 - 44
[2] Patent: WO2012/116145, 2012, A1, . Location in patent: Page/Page column 89
[3] Patent: US2015/210685, 2015, A1, . Location in patent: Paragraph 0598
[4] Patent: US2015/203487, 2015, A1, . Location in patent: Paragraph 0552
[5] Patent: US2015/284411, 2015, A1, . Location in patent: Paragraph 0617
[6] Patent: US9382243, 2016, B2, . Location in patent: Page/Page column 90
[7] Patent: US9868733, 2018, B2, . Location in patent: Page/Page column 78
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Technical Information

• 1,4-Addition of an Amine to a Conjugated Enone • 1,4-Addition of an Amine to a Conjugated Enone • Acid-Catalyzed α -Halogenation of Ketones • Addition of a Hydrogen Halide to an Internal Alkyne • Alcohols from Haloalkanes by Acetate Substitution-Hydrolysis • Alkyl Halide Occurrence • Alkylation of an Alkynyl Anion • Amides Can Be Converted into Aldehydes • Amine Synthesis from Nitriles • Amine Synthesis from Nitriles • Amines Convert Acyl Chlorides into Amides • Amines Convert Esters into Amides • An Alkane are Prepared from an Haloalkane • Azide Reduction by LiAlH4 • Azide Reduction by LiAlH4 • Basicity of Amines • Buchwald-Hartwig C-N Bond and C-O Bond Formation Reactions • Chan-Lam Coupling Reaction • Chichibabin Reaction • Chloroalkane Synthesis with SOCI2 • Convert Haloalkanes into Alcohols by SN2 • Diazotization Reaction • DIBAL Attack Nitriles to Give Ketones • Enamine Formation • Formation of an Amide from an Amine and a Carboxylic Acid • Formation of an Amide from an Amine and a Carboxylic Acid • Friedel-Crafts Alkylation of Benzene with Haloalkanes • General Reactivity • Grignard Reaction • Halogenation of Alkenes • Hantzsch Pyridine Synthesis • Hemiaminal Formation from Amines and Aldehydes or Ketones • Hemiaminal Formation from Amines and Aldehydes or Ketones • Hiyama Cross-Coupling Reaction • Hofmann Elimination • Hofmann Rearrangement • Hydride Reductions • Hydrolysis of Imines to Aldehydes and Ketones • Imine Formation from Amines and Aldehydes or Ketones • Kinetics of Alkyl Halides • Kumada Cross-Coupling Reaction • Leuckart-Wallach Reaction • Mannich Reaction • Methylation of Ammonia • Methylation of Ammonia • Nitrosation of Amines • Peptide Bond Formation with DCC • Petasis Reaction • Preparation of Amines • Preparation of LDA • Pyridines React with Grignard or Organolithium Reagents • Reactions of Alkyl Halides with Reducing Metals • Reactions of Amines • Reduction of an Amide to an Amine • Reduction of an Amide to an Amine • Reductive Amination • Reductive Amination • Ring Opening of Azacyclopropanes • Ring Opening of Azacyclopropanes • Ring Opening of Oxacyclobutanes • Specialized Acylation Reagents-Vilsmeier Reagent • Stille Coupling • Strecker Synthesis • Substitution and Elimination Reactions of Alkyl Halides • Suzuki Coupling • Synthesis of 2-Amino Nitriles • Ugi Reaction
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