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Product Citations

Product Citations

Berg, Kaja ; Hegde, Pooja ; Pujari, Venugopal , et al. DOI: PubMed ID:

Abstract: The electron transport chain (ETC) in the cell membrane consists of a series of redox complexes that transfer electrons from electron donors to acceptors and couples this electron transfer with the transfer of protons (H+) across a membrane. This process generates proton motive force which is used to produce ATP and a myriad of other functions and is essential for the long-term survival of Mycobacterium tuberculosis (Mtb), the causative organism of tuberculosis (TB), under the hypoxic conditions present within infected granulomas. Menaquinone (MK), an important carrier molecule within the mycobacterial ETC, is synthesized de novo by a cluster of enzymes known as the classic/canonical MK biosynthetic pathway. MenA (1,4-dihydroxy-2-naphthoate prenyltransferase), the antepenultimate enzyme in this pathway, is a verified target for TB therapy. In this study, we explored structure-activity relationships of a previously discovered MenA inhibitor scaffold, seeking to improve potency and drug disposition properties. Focusing our campaign upon three molecular regions, we identified two novel inhibitors with potent activity against MenA and Mtb (IC50 = 13-22 μM, GIC50 = 8-10 μM). These analogs also displayed substantially improved pharmacokinetic parameters and potent synergy with other ETC-targeting agents, achieving nearly complete sterilization of Mtb in combination therapy within two weeks in vivo. These new inhibitors of MK biosynthesis present a promising new strategy to curb the continued spread of TB.

Keywords: 1,4-dihydroxy-2-naphthoate prenyltransferase ; MenA ; MenA inhibitors ; Menaquinone ; Mtb ; Mycobacterium tuberculosis ; Piperidine derivatives ; SAR

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Product Details of [ 3769-41-3 ]

CAS No. :3769-41-3 MDL No. :MFCD00134682
Formula : C13H12O2 Boiling Point : -
Linear Structure Formula :- InChI Key :FOTVZLOJAIEAOY-UHFFFAOYSA-N
M.W : 200.23 Pubchem ID :138048
Synonyms :

Calculated chemistry of [ 3769-41-3 ]      Expand+

Physicochemical Properties

Num. heavy atoms : 15
Num. arom. heavy atoms : 12
Fraction Csp3 : 0.08
Num. rotatable bonds : 3
Num. H-bond acceptors : 2.0
Num. H-bond donors : 1.0
Molar Refractivity : 59.44
TPSA : 29.46 Ų

Pharmacokinetics

GI absorption : High
BBB permeant : Yes
P-gp substrate : No
CYP1A2 inhibitor : Yes
CYP2C19 inhibitor : Yes
CYP2C9 inhibitor : Yes
CYP2D6 inhibitor : Yes
CYP3A4 inhibitor : No
Log Kp (skin permeation) : -5.09 cm/s

Lipophilicity

Log Po/w (iLOGP) : 2.29
Log Po/w (XLOGP3) : 3.43
Log Po/w (WLOGP) : 2.82
Log Po/w (MLOGP) : 2.69
Log Po/w (SILICOS-IT) : 2.92
Consensus Log Po/w : 2.83

Druglikeness

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

Water Solubility

Log S (ESOL) : -3.64
Solubility : 0.0463 mg/ml ; 0.000231 mol/l
Class : Soluble
Log S (Ali) : -3.73
Solubility : 0.0374 mg/ml ; 0.000187 mol/l
Class : Soluble
Log S (SILICOS-IT) : -4.49
Solubility : 0.00649 mg/ml ; 0.0000324 mol/l
Class : Moderately soluble

Medicinal Chemistry

PAINS : 0.0 alert
Brenk : 0.0 alert
Leadlikeness : 1.0
Synthetic accessibility : 1.7

Safety of [ 3769-41-3 ]

Signal Word:Warning Class:N/A
Precautionary Statements:P261-P305+P351+P338 UN#:N/A
Hazard Statements:H302-H315-H319-H335 Packing Group:N/A
GHS Pictogram:

Application In Synthesis of [ 3769-41-3 ]

* 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.

  • Upstream synthesis route of [ 3769-41-3 ]
  • Downstream synthetic route of [ 3769-41-3 ]

[ 3769-41-3 ] Synthesis Path-Upstream   1~15

  • 1
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  • [ 531-95-3 ]
Reference: [1] Chemical Communications, 2015, vol. 51, # 32, p. 7012 - 7014
  • 2
  • [ 50-00-0 ]
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  • [ 52085-14-0 ]
Reference: [1] Tetrahedron Letters, 2009, vol. 50, # 46, p. 6339 - 6341
  • 3
  • [ 100-39-0 ]
  • [ 108-46-3 ]
  • [ 3769-41-3 ]
YieldReaction ConditionsOperation in experiment
83% at 80℃; for 2 h; To a mixture of A-14 (4.0 g, 36.4 mmol) in Acetone (50 mL) with K2CO4 (7.7 g, 56 mmol) was added BnBr (4.75 g, 28 mmol). The reaction was stirred for 2 h at 80° C. Water was added, the mixture was extracted with EtOAc thrice. The combined extracts were washed with H2O, brine and dried over Na2SO4. Concentration and chromatograph on silica gel (5:1 PE/EtOAc) gave 6 g (83percent) of B-14 as a white solid. 1H NMR (400 MHz, CDCl3) δ 7.46-7.23 (m, 5H), 7.16 (t, J=8.4 Hz, 1H), 6.60 (dd. J=8.4, 2.4 Hz, 1H), 6.51 (s, 1H), 6.47 (dd, J=8.4, 2.4 Hz, 1H), 5.04 (s, 2H).
68% at 5 - 10℃; for 12 - 17 h; Heating / reflux Preparation 55. 3-Benzyloxy phenol; Benzene-l,3-diol (10.0 grams, 90.9 mmol), dissolved in acetone (50 mL), was cooled to 5-10 0C, and added with anhydrous potassium carbonate (18.8 grams, 136.3 mol) under smooth stirring. Benzyl bromide (10.88 grams, 63.6 mmol) was slowly introduced to the reaction mass at this temperature and cooling bath was removed after ten minutes. The reaction mixture was refiuxed for 12 to 17 hours. After bringing to 20 to 40 °C, the solid potassium carbonate was filtered out. The filtrate was concentrated and poured over ice-water, acidified with 6 N hydrochloric acid and extracted with ethyl acetate (3x25 mL). The combined organic layer was washed with water, dried with anhydrous sodiumsulphate and evaporated to get brown colored gummy mass. The dibenzyloxy bye-product was discarded by column chromatographic purification using 230-400 mesh silica-gel and mixture of ethyl acetate and petroleum ether (10:90) to yield pure a light brown gummy mass title compound. Yield: 13.5 g, 68percent 1H NMR (CDCl3, 200 MHz): δ 7.50-7.30 (m, 5H), 7.12 (t, J = 8.2 Hz, IH), 6.57 (dd, J = 1.8 6.2 Hz, IH), 6.50-6.40 (m, 2H), 5.02 (s, 2H), 4.86 (bs, IH, D2O exchangeable). Mass (CI): m/z 201(M++l). IR (cm"1) (KBr): 3406, 3032, 1595, 1490, 1454.
33% With potassium carbonate In N,N-dimethyl-formamide at 70℃; for 3 h; Preparation Example 18. C-(5-(3-Benzyloxy-phenoxy)-thiophen-2-yl)-methylamine To a solution of resorcinol (10g, 90.8mmol) in N,N-dimethylformamide (100mL) was added potassium carbonate (12.6g, 90.8mmol) and benzyl bromide (10.8mL, 90.8mmol), and the mixture was stirred at 60°C for 2 hours. The reaction mixture was allowed to room temperature, ethyl acetate and water were added for partitioning, the organic layer was washed with water and dried over anhydrous magnesium sulfate. The solvent was evaporated, then, the residue was purified by silica gel column chromatography (hexane : ethyl acetate), and 3-benzyloxy-phenol (6.0g, 33percent) was obtained as a pale brown oil. To a solution of the resulting 3-benzyloxy-phenol (2.6g, 13.0mmol) and a 5-nitrothiophene-2-carbonitrile (2.0g, 13.0mmol) in dimethylsulfoxide (25mL) was added potassium carbonate (1.98g, 14.0mmol), and the solution was stirred at 70°C for 3 hours. The reaction solution was allowed to room temperature, ethyl acetate and water were added for partitioning, the organic layer was washed with water and dried over anhydrous magnesium sulfate. The solvent was evaporated, the residue was purified by silica gel column chromatography (hexane : ethyl acetate = 10 : 1), and 5-(3-benzyloxy-phenoxy)-thiophene-2-carbonitrile (110mg, 2.8percent) was obtained as a pale brown solid. Next, to a solution of lithium aluminum hydride (27mg,0.716mmol) in tetrahydrofuran (2.0mL) was added a solution of 5-(3-benzyloxy-phenoxy)-thiophene-2-carbonitrile obtained above (110mg, 0.358mmol) in tetrahydrofuran (1mL), and the solution was stirred at room temperature for 3 hours. Water was added to the reaction solution, which was then extracted with ethyl acetate, dried over anhydrous magnesium sulfate, and the solvent was evaporated to obtain the title compound (80mg, 72percent) as a red solid. This compound was used in the next reaction without purification.
33% With potassium carbonate In N,N-dimethyl-formamide at 60℃; for 2 h; To a solution of resorcinol (10g, 90.8mmol) in N,N-dimethylformamide (100mL) was added potassium carbonate (12.6g, 90.8mmol) and benzyl bromide (10.8mL, 90.8mmol), and the mixture was stirred at 60°C for 2 hours. The reaction mixture was allowed to room temperature, ethyl acetate and water were added for partitioning, the organic layer was washed with water and dried over anhydrous magnesium sulfate. The solvent was evaporated, then, the residue was purified by silica gel column chromatography (hexane : ethyl acetate), and 3-benzyloxy-phenol (6.0g, 33percent) was obtained as a pale brown oil. To a solution of the resulting 3-benzyloxy-phenol (2.6g, 13.0mmol) and a 5-nitrothiophene-2-carbonitrile (2.0g, 13.0mmol) in dimethylsulfoxide (25mL) was added potassium carbonate (1.98g, 14.0mmol), and the solution was stirred at 70°C for 3 hours. The reaction solution was allowed to room temperature, ethyl acetate and water were added for partitioning, the organic layer was washed with water and dried over anhydrous magnesium sulfate. The solvent was evaporated, the residue was purified by silica gel column chromatography (hexane : ethyl acetate = 10 : 1), and 5-(3-benzyloxy-phenoxy)-thiophene-2-carbonitrile (110mg, 2.8percent) was obtained as a pale brown solid. Next, to a solution of lithium aluminum hydride (27mg,0.716mmol) in tetrahydrofuran (2.0mL) was added a solution of 5-(3-benzyloxy-phenoxy)-thiophene-2-carbonitrile obtained above (110mg, 0.358mmol) in tetrahydrofuran (1mL), and the solution was stirred at room temperature for 3 hours. Water was added to the reaction solution, which was then extracted with ethyl acetate, dried over anhydrous magnesium sulfate, and the solvent was evaporated to obtain the title compound (80mg, 72percent) as a red solid. This compound was used in the next reaction without purification.
32% With sodium hydride In N,N-dimethyl-formamide at 0 - 20℃; for 4 h; 3-Benzyloxy-phenol (JRL01015)
To a stirred solution of resorcinol (7.05 g, 63.4 mmol) in DMF (100 mL) at 0° C. under nitrogen was added NaH (60percent, 2.54 g, 63.4 mmol).
After stirring for 30 min, benzyl bromide (7.72 mL, 63.4 mmol) was added and the resulting mixture was stirred for 4 h at room temperature.
The reaction mixture was diluted with ethyl acetate (300 mL) and the organic layer separated washed with brine (300 mL, 4*100 mL), dried (Na2SO4), filtered and evaporated to give the crude product which was fractionated by flash chromatography (hexane/EtOAc 3:1) to give JRL01015 as a pale yellow solid (4.06 g, 32percent); Rf 0.50 (Hexane/EtOAc 3:1); 1H (400 MHz CDCl3) 4.97 (1H, s OH), 5.01 (2H, s, CH2), 6.42 (1H, dd, J 2.3 and 8.0 Hz), 6.47 (1H, t, J=2.3 Hz), 6.56 (1H, dd, J 2.3 and 8.0 Hz), 7.12 (1H, t, J=8.0 Hz) and 7.28-7.46 (5H, m).

Reference: [1] Patent: US2014/256657, 2014, A1, . Location in patent: Paragraph 0399
[2] Tetrahedron, 2007, vol. 63, # 43, p. 10698 - 10708
[3] Journal of Organic Chemistry, 1997, vol. 62, # 10, p. 3062 - 3075
[4] Journal of Medicinal Chemistry, 2004, vol. 47, # 17, p. 4155 - 4158
[5] Chemical Communications, 2018, vol. 54, # 39, p. 4935 - 4938
[6] Patent: WO2006/29075, 2006, A2, . Location in patent: Page/Page column 44-45
[7] Chemistry - An Asian Journal, 2016, vol. 11, # 5, p. 757 - 765
[8] Chemical Communications, 2015, vol. 51, # 32, p. 7012 - 7014
[9] Patent: EP1782811, 2007, A1, . Location in patent: Page/Page column 71
[10] Patent: EP1669348, 2006, A1, . Location in patent: Page/Page column 81
[11] Patent: US2004/19016, 2004, A1, . Location in patent: Page/Page column 64
[12] Journal of Organic Chemistry, 2013, vol. 78, # 16, p. 7859 - 7884
[13] Patent: US2006/58361, 2006, A1, . Location in patent: Page/Page column 36
[14] Patent: WO2013/177668, 2013, A1, . Location in patent: Page/Page column 25-26
[15] Patent: US2015/191473, 2015, A1, . Location in patent: Paragraph 0089-0090
[16] Bioorganic and Medicinal Chemistry, 2015, vol. 23, # 13, p. 3322 - 3336
[17] RSC Advances, 2016, vol. 6, # 38, p. 32319 - 32327
[18] Bioorganic and Medicinal Chemistry Letters, 2017, vol. 27, # 13, p. 3026 - 3029
[19] Patent: WO2009/146112, 2009, A1, . Location in patent: Page/Page column 47-48
  • 4
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YieldReaction ConditionsOperation in experiment
96% With sodium hydroxide In tetrahydrofuran b
3-Benzyloxyphenol
3-Benzyloxyphenyl acetate (4.84 g, 20 mmol), as prepared in the preceding step, in tetrahydrofuran (50 mL) was treated with 1N NaOH (30 mL) at room temperature for 3 h.
The mixture was acidified with 1N HCl and extracted with ethyl acetate (3*100 mL).
The organic phase was washed with brine (2*50 mL) and dried over Na2 SO4.
The solvent was removed in vacuo and the residue purified by flash column chromatography (methylene chloride) to give the title compound as a colorless liquid (3.80 g, 96percent).
1 H-NMR (300 MHz, CDCl3) δ 5.01 (s, 2H), 5.09 (s, 1H), 6.47 (t, 2H, J=2.2 Hz), 6.56 (dd, 1H, J=4.1 Hz), 7.11 (t, 1H), and 7.39 (m, 5H).
96% With sodium hydroxide In tetrahydrofuran b
3-Benzyloxyphenol
3-Benzyloxyphenyl acetate (4.84 g, 20 mmol), as prepared in the preceding step, in tetrahydrofuran (50 mL) was treated with 1N NaOH (30 mL) for 3 h at room temperature.
The mixture was acidified with 1N HCl and extracted into ethyl acetate (3*100 ML).
The organic phase was washed with brine (2*50 mL), dried over Na2 SO4, and concentrated in vacuo.
The residue was then purified by flash column chromatography (methylene chloride) to give the title compound as a colorless liquid (3.80 g, 96percent).
1 H-NMR (300 MHz, CDCl3) δ 5.01 (s, 2H), 5.09 (s, 1fH), 6.47 (m, 2H), 6.56 (dd, 1H), 7.11 (t, 1H), 7.39 (m, 5H).
Reference: [1] Patent: US6034127, 2000, A,
[2] Patent: US5792769, 1998, A,
  • 5
  • [ 3769-42-4 ]
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Reference: [1] Synthetic Communications, 1995, vol. 25, # 15, p. 2327 - 2335
  • 6
  • [ 100-44-7 ]
  • [ 108-46-3 ]
  • [ 3769-41-3 ]
YieldReaction ConditionsOperation in experiment
72% With potassium carbonate; potassium iodide In acetone for 48.5 h; Reflux Resorcinol (11 g, 100 mmol) was dissolved in acetone (100 mL). To this solution, powdered potassium carbonate (13.8 g, 300 mmol) and potassium iodide (pinch) were added slowly. The mixture was refluxed and benzyl chloride (11.6 mL, 100 mmol) added drop wise to the refluxing mixture over a period of 30 min. The reaction was carried at for 48 h and cooled the reaction to room temperature and potassium carbonate was filtered and washed with acetone, the collected filtrates concentrated by vacuum distillation. Product thus obtained was purified by column chromatography using chloroform and hexane (3:7) mixture as eluent to yield pale brown color solid (12 g; 72percent).
Reference: [1] Journal of Molecular Structure, 2011, vol. 1001, # 1-3, p. 118 - 124
[2] Tetrahedron Letters, 2002, vol. 43, # 39, p. 6893 - 6895
[3] Journal of the Chemical Society, Chemical Communications, 1987, # 14, p. 1058 - 1061
[4] Journal of the American Chemical Society, 1931, vol. 53, p. 3397,3405
[5] Patent: US1888827, 1931, ,
[6] Journal of the American Chemical Society, 1931, vol. 53, p. 3397,3405
[7] Journal of Medicinal Chemistry, 1987, vol. 30, # 1, p. 136 - 142
[8] Pharmazie, 2001, vol. 56, # 7, p. 517 - 522
[9] Synthesis, 2009, # 24, p. 4190 - 4202
[10] Journal of Polymer Science, Part A: Polymer Chemistry, 2013, vol. 51, # 4, p. 936 - 946
[11] Organic Process Research and Development, 2008, vol. 12, # 4, p. 755 - 764
  • 7
  • [ 185613-44-9 ]
  • [ 3769-41-3 ]
Reference: [1] Journal of Organic Chemistry, 1997, vol. 62, # 1, p. 2 - 3
  • 8
  • [ 107623-21-2 ]
  • [ 3769-41-3 ]
Reference: [1] Tetrahedron, 2013, vol. 69, # 31, p. 6409 - 6414
  • 9
  • [ 96057-78-2 ]
  • [ 3769-41-3 ]
Reference: [1] Synlett, 2003, # 7, p. 997 - 1001
  • 10
  • [ 1484-26-0 ]
  • [ 3769-41-3 ]
Reference: [1] Heteroatom Chemistry, 2015, vol. 26, # 6, p. 411 - 416
  • 11
  • [ 100-39-0 ]
  • [ 108-46-3 ]
  • [ 3769-42-4 ]
  • [ 3769-41-3 ]
Reference: [1] European Journal of Organic Chemistry, 2014, vol. 2014, # 15, p. 3170 - 3181
  • 12
  • [ 1700-37-4 ]
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Reference: [1] Bioorganic and Medicinal Chemistry, 2006, vol. 14, # 23, p. 7962 - 7966
  • 13
  • [ 136-36-7 ]
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Reference: [1] Synlett, 2003, # 7, p. 997 - 1001
  • 14
  • [ 70371-58-3 ]
  • [ 3769-41-3 ]
Reference: [1] Chemistry - An Asian Journal, 2016, vol. 11, # 5, p. 757 - 765
  • 15
  • [ 136-36-7 ]
  • [ 620-05-3 ]
  • [ 3769-41-3 ]
Reference: [1] Justus Liebigs Annalen der Chemie, 1958, vol. 612, p. 78,88
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Technical Information

• Acetal Formation • Acidity of Phenols • Benzylic Oxidation • Birch Reduction • Birch Reduction of Benzene • Blanc Chloromethylation • Chan-Lam Coupling Reaction • Complete Benzylic Oxidations of Alkyl Chains • Complete Benzylic Oxidations of Alkyl Chains • Conjugate Additions of p-Benzoquinones • Conversion of Amino with Nitro • Decomposition of Arenediazonium Salts to Give Phenols • Deprotonation of Methylbenzene • Diazo Coupling • Directing Electron-Donating Effects of Alkyl • Electrophilic Chloromethylation of Polystyrene • Electrophilic Substitution of the Phenol Aromatic Ring • Esters Are Reduced by LiAlH4 to Give Alcohols • Esters Hydrolyze to Carboxylic Acids and Alcohols • Ether Synthesis by Oxymercuration-Demercuration • Etherification Reaction of Phenolic Hydroxyl Group • Ethers Synthesis from Alcohols with Strong Acids • Friedel-Crafts Alkylation of Benzene with Acyl Chlorides • Friedel-Crafts Alkylation of Benzene with Carboxylic Anhydrides • Friedel-Crafts Alkylation Using Alkenes • Friedel-Crafts Alkylations of Benzene Using Alkenes • Friedel-Crafts Alkylations Using Alcohols • Friedel-Crafts Reaction • Grignard Reagents Transform Esters into Alcohols • Groups that Withdraw Electrons Inductively Are Deactivating and Meta Directing • Halogenation of Benzene • Halogenation of Phenols • Hydrogenation to Cyclohexane • Hydrogenolysis of Benzyl Ether • Kolbe-Schmitt Reaction • Nitration of Benzene • Nomenclature of Ethers • Nucleophilic Aromatic Substitution • Nucleophilic Aromatic Substitution with Amine • Oxidation of Alkyl-substituted Benzenes Gives Aromatic Ketones • Oxidation of Phenols • Pechmann Coumarin Synthesis • Preparation of Aldehydes and Ketones • Preparation of Alkylbenzene • Preparation of Ethers • Primary Ether Cleavage with Strong Nucleophilic Acids • Reactions of Benzene and Substituted Benzenes • Reactions of Ethers • Reductive Removal of a Diazonium Group • Reimer-Tiemann Reaction • Reverse Sulfonation——Hydrolysis • Ring Opening of Oxacyclopropane • Sulfonation of Benzene • Synthesis of Alcohols from Tertiary Ethers • The Acylium Ion Attack Benzene to Form Phenyl Ketones • The Claisen Rearrangement • The Nitro Group Conver to the Amino Function • The Nucleophilic Opening of Oxacyclopropanes • Vilsmeier-Haack Reaction
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