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Supporting Information Synthesis of Benzimidazoles From Amidines
Supporting Information Synthesis of Benzimidazoles From Amidines
© Wiley-VCH 2008
69451 Weinheim, Germany
S1
Supporting Information
Content
General Considerations S2
General Procedures for the Synthesis of Amidines from Anilines and Carbonitriles S3
Spectra S31
References S37
S2
General Considerations
For the synthesis of amidines, all anilines and carbonitriles were commercially available
and used as received, except for 2-(tert-butyldimethylsilyl)benzonitrile, which was syn-
thesized from 2-iodobenzonitrile and tert-butyldimethylsilylchloride (TBSCl). NaH (dry,
95%) was purchased from Sigma-Aldrich and stored in a nitrogen filled glove box. AlCl3
(98.5%, extra pure, anhydrous, powder) was obtained from Acros Organics. DMSO (an-
hydrous, 99.9+%) was purchased from Sigma-Aldrich in a SureSeal™ bottle. Cu(OAc)2
(anhydrous, 99.999%) was obtained from Sigma-Aldrich and stored in a desiccator with
Drierite® as drying agent. Similar results were obtained with Cu(OAc)2 (anhydrous, min.
97%), which was purchased from Strem Chemicals and stored in a desiccator. HOAc
(ACS reagent, 99.7+%) was obtained from Sigma-Aldrich. O2 (extra dry, size 200, mini-
mum purity 99.8%) was obtained from Airgas. N-Phenylbenzamidine (97%+) was pur-
chased from Maybridge. All other commercially available materials as solvents and rea-
gents were used as received.
Silica gel chromatography was performed using a Biotage SP4™ EXP Flash Purifica-
tion System. For the purification of the benzimidazoles, 25+M KP-Sil silica cartridges
were used. MeOH or EtOAc was used to transfer the crude reaction material onto the
silica gel samplet. The samplet was dried under vacuum prior to usage.
Nuclear magnetic resonance (NMR) spectra were recorded on a Varian Mercury-300
instrument. Chemical shifts () are reported in ppm from tetramethylsilane with the sol-
vent resonance as the internal standard (1H NMR CDCl3: 7.27, DMSO-d6: 2.50; 13C
NMR CDCl3: 77.23, DMSO-d6: 39.51) or fluorobenzene (19F NMR C6H5F: -113.15)
as external standard. 13C NMR spectra were recorded with complete proton decoupling.
Due to the existence of tautomers, some 13C NMR signals could not be detected for most
of the NH2 amidines and NH benzimidazoles. Only distinct signals are reported. Infrared
(IR) spectra were recorded on a Perkin Elmer System 2000 FT-IR spectrophotometer.
Melting points (mp) were taken on a MEL-TEMP® apparatus and are uncorrected. Gas
chromatographic (GC) analyses were performed with a Hewlett-Packard 6890 Series GC
System with a capillary column with cross-linked methyl siloxane as the stationary phase
(25 m 0.20 mm). GC conversions and GC yields were calculated using dodecane as
internal standard. Analytical high performance liquid chromatography (HPLC) was per-
formed on an Agilent 1100/1200 Series HPLC System with an Agilent Eclipse XDB-C18
5 μm stationary phase (150 4.6 mm). Microanlyses were carried out by Atlantic Micro-
lab, Inc. (Norcross, GA). In cases where microanalyses were not performed or satisfac-
tory results were not obtained, the 1H NMR and 13C NMR are attached.
S3
CN
TBS
General Procedures for the Synthesis of Amidines from Anilines and Carbonitriles
Procedure A. A round bottom flask (100 mL in volume) equipped with a stir bar was
charged with NaH (264 mg, 11.0 mmol, 95%, 1.10 equiv) in the glove box. The flask was
sealed with a rubber septum and taken out of the glove box. Under a stream of nitrogen,
DMSO (5 mL) was added, and the resulting suspension cooled with an ice-water bath
prior to the addition of the aniline (12.0 mmol, 1.20 equiv) and the carbonitrile (10.0
mmol). The mixture was kept at 0 °C for 30-60 min and then stirred for the indicated
time at room temperature. The septum was removed, and ice-water (50 mL) was added
while maintaining vigorous stirring. In the cases, when the amidine precipitated upon
S4
addition of water, the solid was filtered off and dissolved in EtOAc (20 mL). In all other
cases, the aqueous layer was extracted with EtOAc (3 20 mL). The extracts were
combined and washed with water (2 50 mL). In both of the aforementioned cases, the
organic layer was dried over MgSO4, filtered, and concentrated under reduced pressure.
The residue was either purified by silica gel chromatography or recrystallization.
H
N
NH Me
1588, 1484, 1456, 1382, 1279, 1245, 1071, 1039, 1023, 907, 842, 780, 768, 729, 697,
658, 520, 507, 459 cm-1. Anal. Calcd. for C14H14N2: C, 79.97; H, 6.71; Found: C, 80.10;
H, 6.70.
H
N
NH Me
MeO
H
N
NH Me
F
H
N
NH Me
Cl
H
N
NH Me
Br
H
N DMSO
NH CF3
1239, 1175, 1131, 1052, 1035, 953, 909, 837, 774, 700, 669, 646, 599, 524 cm-1. Anal.
Calcd. for C16H17F3N2OS: C, 56.13; H, 5.00; Found: C, 56.26; H, 4.96.
H
N
NH CF3
MeO
H
MeO N
NH CF3
H
N
NH CF3
tBuO2C
H
tBuO2C N
NH CF3
H
N
NH CF3
I
H
N
NH OMe
H
N
NH OMe
Cl
7.5, 1.8 Hz, 1H), 7.28 (d, J = 8.4 Hz, 2H), 7.06 (t, J = 7.5 Hz, 1H), 6.97 (d, J = 8.4 Hz,
1H), 6.91 (d, J = 8.4 Hz, 2H), 5.57 (s, 2H), 3.90 (s, 3H). 13C NMR (75 MHz, CDCl3)
131.85, 131.23, 129.59, 127.88, 123.47, 123.32, 121.41, 111.65, 55.97. IR (KBr plate,
CDCl3) 3490, 3383, 3078, 2940, 2838, 1627, 1484, 1464, 1437, 1369, 1301, 1275,
1241, 1181, 1164, 1091, 1047, 1024, 1010, 859, 832, 804, 753, 675, 514 cm-1. Anal.
Calcd. for C14H14ClN2O: C, 64.49; H, 5.03; Found: C, 64.33; H, 4.98.
H
N
NH Cl
H
N
NH TBS
amidine as a brown solid, yield 192 mg (14%, mp 108-112 °C) and 496 mg of reisolated
2-(tert-butyldimethylsilyl)benzonitrile. 1H NMR (300 MHz, CDCl3) 7.69-7.58 (m, 1H),
7.57-7.29 (m, 5H), 7.24-6.98 (m, 3H), 4.96 (bs, 2H), 0.98 (s, 9H), 0.40 (s, 6H). 13C NMR
(75 MHz, CDCl3) 136.91, 129.58, 129.03, 128.49, 127.90, 123.18, 121.60, 27.54,
17.99, -3.28. IR (KBr plate, CDCl3) 3434, 3285, 3054, 2952, 2930, 2857, 1621, 1585,
1558, 1482, 1431, 1380, 1254, 1119, 1072, 906, 837, 826, 813, 774, 735, 701, 670, 525,
511, 469, 417 cm-1.
Cl
H
N
NH Me
Cl
H
N
NH Me
Br
H
N
NH Me
H
Br N
NH CF3
Me
Me
N
NH Me
Me
N
NH Cl
Me
N
NH Cl
Br
(bs, 1H), 3.42 (s, 3H). 13C NMR (75 MHz, CDCl3) 164.93, 144.61, 137.46, 131.94,
131.00, 130.03, 129.94, 129.56, 128.23, 126.87, 119.11, 38.93. IR (KBr plate, CDCl3)
3318, 3058, 1601, 1580, 1491, 1438, 1383, 1322, 1263, 1180, 1104, 1055, 1034, 1010,
995, 855, 831, 766, 743, 714, 695, 644, 584, 538, 440 cm-1. Anal. Calcd. for
C14H13BrClN2: C, 51.96; H, 3.74; Found: C, 51.91; H, 3.65.
Me
Br N
NH Cl
H
N tBu
NH
H
N tBu
NH
Me
H
N tBu
NH
MeO
H
N tBu
NH
Br
164.83, 149.47, 132.56, 123.70, 115.42, 37.01, 28.65. IR (KBr plate, CDCl3) 3501,
3381, 2960, 1647, 1621, 1595, 1475, 1395, 1365, 1345, 1256, 1215, 1093, 1068, 1005,
871, 848, 804, 644, 543, 504, 466 cm-1. Anal. Calcd. for C11H15BrN2: C, 51.78; H, 5.93;
Found: C, 51.77; H, 5.92.
An oven-dried disposable test tube (15 mL in volume) equipped with a stir bar and a
rubber septum was cooled to room temperature under vacuum and backfilled with O2.
With the tube open to the air, the amidine (1.00 mmol) and Cu(OAc)2 (27.2 mg, 0.15
mmol, 15 mol%) were added. The tube was evacuated and backfilled with O2, followed
by addition of DMSO (2 mL) by syringe. The reaction mixture was degassed by
sonication under vacuum and backfilled with O2 (this procedure was carried out three
times). An O2-filled balloon was attached to a needle with the aid of a small piece of
rubber tubing. The needle was inserted through the rubber septum, and HOAc (286 μL,
5.00 mmol, 5.00 equiv) was added by syringe. The reaction mixture was lowered into a
preheated oil bath at 100 °C and stirred for the indicated time. After allowing the reaction
mixture to cool to room temperature, the septum was removed and ethyl acetate (8 mL),
distilled water (4 mL), and aqueous 30% NH4OH (4 mL) were added. The aqueous layer
was extracted with ethyl acetate (2 8 mL). In a round bottom flask (50 mL in volume)
equipped with a stir bar, the combined organic layers were stirred with activated charcoal
(5-20 mg, NORIT CN1, decolorizing from Acros Organics) for 10-15 min, before being
dried over MgSO4, filtered through Celite, and concentrated under reduced pressure. The
residue was purified by silica gel chromatography.
H
N
d6) 12.94 (s, 1H), 8.23-8.15 (m, 2H), 7.76-7.44 (m, 5H), 7.26-7.16 (m, 2H). The 1H
NMR is identical to a sample of 2-phenylbenzimidazole purchased from Acros Organics.
H
N
N
Me
H
N
MeO N
Me
H
N
F N
Me
H
N
Cl N
Me
H
N
Br N
Me
Hz, 1H), 7.45-7.32 (m, 4H), 2.60 (s, 3H). 13C NMR (75 MHz, DMSO-d6) 153.21,
137.17, 131.37, 129.66, 129.54, 129.53, 126.05, 124.79, 114.07, 21.06. IR (KBr pellet)
2698, 1581, 1543, 1487, 1438, 1394, 1305, 1275, 1223, 1097, 1045, 971, 915, 854, 806,
768, 754, 731, 681, 593, 569485, 454, 418 cm-1. Anal. Calcd. for C14H11BrN2: C, 58.56;
H, 3.86; Found: C, 58.49; H, 3.82.
H
N
N
F3C
H
N
MeO N
F3C
1359, 1315, 1268, 1121, 1056, 1034, 974, 835, 814, 773, 694, 648, 597, 563, 435 cm-1.
Anal. Calcd. for C15H11F3N2O: C, 61.64; H, 3.79; Found: C, 61.73; H, 3.84.
The reaction was also conducted with the meta substituted amidine to give 5-methoxy-2-
(2-(trifluoromethyl)phenyl)benzimidazole as the main product. Following the representa-
tive procedure, after 18 h reaction time and silica gel chromatography (Hex/EtOAc,
gradient 12% to 70% EtOAc), a light yellow foam was obtained, yield 216 mg (74%, mp
161 °C; GC: 19:1 mixture of regioisomers in favor of the isomer shown above; the yield
corresponds to the mixture of compounds).
H
N
tBuO2C N
F3C
The reaction was also conducted with the meta substituted amidine to give 5-tert-butoxy-
carbonyl-2-(2-(trifluoromethyl)phenyl)benzimidazole as product. After 36 h reaction time
and silica gel chromatography (Hex/EtOAc, gradient 12% to 60% EtOAc), a white foam
was obtained, yield 251 mg (69%, no mp; GC: 90% conversion of the starting material;
no regioisomer detected by GC and HPLC).
S21
H
N
I N
F3 C
H
N
N
MeO
H
N
Cl N
MeO
H
N
N
Cl
H
N
N
TBS
time and silica gel chromatography (Hex/EtOAc, gradient 12% to 40% EtOAc), a light
brown solid was obtained, yield 124 mg (80%, mp 230-239 °C). 1H NMR (300 MHz,
DMSO-d6) 12.58 (s, 1H), 7.74-7.67 (m, 1H), 7.63 (d, J = 6.6 Hz, 1H), 7.57-7.44 (m,
4H), 7.25-7.13 (m, 2H), 0.90 (s, 9H), -0.08 (s, 6H). 13C NMR (75 MHz, DMSO-d6)
153.54, 143.28, 138.06, 137.63, 136.31, 134.50, 129.71, 128.54, 128.09, 122.28, 121.35,
118.78, 111.19, 27.73, 17.30, -3.46. IR (KBr pellet) 2925, 1623, 1549, 1469, 1420,
1368, 1314, 1265, 1215, 1131, 1119, 1069, 1007, 972, 933, 907, 838, 822, 765, 752, 736,
717, 676, 648, 569, 474, 406 cm-1. Anal. Calcd. for C19H24N2Si: C, 73.97; H, 7.84;
Found: C, 73.87; H, 7.69.
H
N
Cl
N
Me
H
N
Cl
Br N
Me
131.19, 130.99, 128.37, 126.06, 124.99, 20.87. IR (KBr pellet) 2975, 1599, 1479, 1438,
1407, 1302, 1276, 1200, 1110, 1047, 968, 915, 875, 810, 593, 578, 458, 421 cm-1. Anal.
Calcd. for C14H10BrClN2: C, 52.29; H, 3.13; Found: C, 52.07; H, 3.05.
H F
N
N
Me
H
Br N
Me N
F3C
1269, 1177, 1133, 1056, 1035, 983, 857, 773, 694, 668, 646, 598, 426 cm-1. Anal. Calcd.
for C15H10BrF3N2: C, 50.73; H, 2.84; Found: C, 50.45; H, 2.74.
Me
N
N
Me
Me
N
N
Cl
Me
N
Br N
Cl
Me
Br N
N
Cl
H
N
tBu
N
H
N
tBu
Me N
H
N
tBu
MeO N
1.8 Hz), 6.89 (d, J = 2.1 Hz) (1H), 6.75 (dd, J = 9.3, 2.0 Hz) 6.72 (dd, J = 9.0, 2.1 Hz)
(1H), 3.76 (s), 3.74 (s) (3H), 1.37 (s, 9H). 13C NMR (75 MHz, DMSO-d6) 162.54,
161.20, 155.30, 154.81, 143.63, 137.19, 135.24, 129.05, 118.70, 110.94, 110.69, 109.73,
101.36, 94.37, 55.42, 55.39, 33.19, 33.14, 29.29. IR (KBr pellet) 2968, 2831, 1633,
1598, 1523, 1490, 1455, 1436, 1404, 1365, 1313, 1264, 1219, 1199, 1034, 997, 952, 815,
725, 632, 579, 549, 429 cm-1. Anal. Calcd. for C12H16N2O: C, 70.56; H, 7.90; Found: C,
70.33; H, 7.87.
H
N
tBu
Br N
H
N
R
H N
H H
N R Cu(OAc)2 N
or
R
NH O2/HOAc H
N R N
[Cu] N
H
A B
H H H H
EWG N EWG N DG N DG N
R R R R
N N N N
H H H H
H H H H
N N N N
R R R R
EWG N EWG N DG N DG N
H H H H
C D
Scheme 1. Influence of the Substituent and the Substitution Pattern on the Reactivity.
S30
H
H 0.15 equiv Cu(OAc)2, 5 equiv HOAc N
N O2 atmosphere, DMSO, 100 ºC R
R N
NH CF3 F3C
H H H
N N MeO N
H H
N tBuO2C N
NH CF3 NH CF3
tBuO2C
p-CO2tBu m-CO2tBu
Spectra
S32
S33
S34
S35
S36
S37
References
[2] a) L.-H. Du, Y.-G. Wang, Synthesis 2007, 675–678; b) G. Speier, L. Párkányi, J. Org.
Chem. 1986, 51, 218–221.
[5] J. Charton, S. Girault-Mizzi, C. Sergheraert, Chem. Pharm. Bull. 2005, 53, 492–497.