Journal of Medicinal Chemistry
Article
precipitated crude product was then filtered and dried under vacuum.
Final purification was achieved by reverse phase column chromatog-
raphy to obtain the Boc protected dye (1.14 g, 1.128 mmol, 80%). Mp:
250−252 °C. Vis/NIR abs, λmax: 705 nm. 1H NMR (D2O): 8.14 (d, J
= 12.8 Hz, 2H), 7.95 (d, J = 7.6 Hz, 2H), 7.84 (br s, 2H), 7.34 (d, J =
8.0 Hz, 2H), 7.29 (br s, 2H), 7.22 (br s, 2H), 6.15 (d, J = 13.2 Hz,
2H), 4.23 (br s, 4H), 3.65 (br s, 4H), 3.31 (s, 18H), 2.79 (br s, 2H),
2.68 (br s, 4H), 2.45 (br s, 6H), 1.96 (br s, 2H), 1.41 (s, 12H), 1.36 (s,
9H). 13C NMR (DMSO-d6): 170.43, 160.84, 145.07, 144.97, 142.73,
142.64, 140.16, 132.56, 130.36, 126.50, 124.73, 120.07, 118.68, 109.64,
98.53, 78.01, 63.14, 53.00, 48.42, 28.73, 28.23, 24.83, 21.91, 21.01.
Mono(2-((E)-2-((E)-2-((4-carboxyphenyl)thio)-3-((E)-2-(3,3-di-
methyl-5-sulfonato-1-(3-(trimethylammonio)propyl)indolin-2-
ylidene)ethylidene)cyclohex-1-en-1-yl)vinyl)-3,3-dimethyl-1-(3-
(trimethylammonio)propyl)-3H-indol-1-ium-5-sulfonate) Tribro-
mide (8). To a solution of the chloro dye 3 (0.5 g, 0.613 mmol)
under N2 in a mixture of DMSO and water (10 mL/10 mL) was added
4-mercaptobenzoic acid (0.24 g, 1.55 mmol), and the reaction was
stirred at rt for 30 min while monitoring by vis/NIR spectropho-
tometry. After complete conversion of the starting material, water was
evaporated from the reaction mixture on rotavapor and the residue was
cooled to rt and then poured into ethyl acetate (200 mL) while
stirring. The precipitated product was filtered and dried under vacuum
to obtain the pure target dye as a green solid (0.52 g, 91%). Mp: 250−
255 °C. Vis/NIR abs, λmax: 791 nm. 1H NMR (D2O): 8.62 (d, J = 13.6
Hz, 2H), 7.96 (d, J = 7.2 Hz, 4H), 7.79 (s, 2H), 7.51(d, J = 8.4 Hz,
2H), 7.38 (d, J = 8.4 Hz, 2H), 6.46 (d, J = 14 Hz, 2H), 4.37 (s, 4H),
3.71 (br s, 4H), 3.30 (s, 18 H), 2.77 (br s, 4H), 2.45 (br s, 4H), 1.93
(s, 2H), 1.43 (s, 12H). 13C NMR (DMSO): 172.87, 167.12, 148.61,
146.11, 143.12, 142.29, 140.97, 134.49, 130.95, 128.58, 126.65, 126.21,
120.27, 111.07, 102.89, 62.83, 52.90, 49.37, 40.89, 27.59, 26.46, 21.34.
evaporated to dryness to obtain the pure target dye as a green solid
(0.63 g, 77%). Mp: 210−212 °C. Vis/NIR abs, λmax: 790 nm. 1H NMR
(D2O, 50 °C): 8.80 (d, J = 14.0 Hz, 2H), 8.00 (d, J = 8.0 Hz, 2H), 7.95
(s, 2H), 7.55−7.45 (m, 4H), 7.31 (d, J = 7.2 Hz, 2H), 6.47 (d, J = 14.4
Hz, 2H), 4.42 (br s, 4H), 3.69 (br s, 4H), 3.30 (s, 18H), 2.84 (br s,
4H), 2.50 (br s, 4H), 2.05 (br s, 2H), 1.60 (s, 12H). 13C NMR
(DMSO-d6, 50 °C): 172.86, 146.16, 145.80, 142.41, 142.33, 140.96,
134.71, 128.13, 126.71, 121.97, 120.18, 111.04, 102.77, 63.01, 53.06,
52.91, 49.34, 41.58, 27.83, 27.73, 26.57, 21.39, 21.00. HRMS (TOF
MS ES+) calcd for C48H65N5O6S3: m/z 903.4097 ([M + H]+). Found:
m/z 451.7050 [M + H/2]+.
Mono(2-((E)-2-((E)-2-((4-(aminomethyl)phenyl)thio)-3-((E)-2-(3,3-
dimethyl-5-sulfonato-1-(3-(trimethylammonio)propyl)indolin-2-
ylidene)ethylidene)cyclohex-1-en-1-yl)vinyl)-3,3-dimethyl-1-(3-
(trimethylammonio)propyl)-3H-indol-1-ium-5-sulfonate) Tribro-
mide (11). To a solution of the chloro dye 3 (1.2 g, 1.47 mmol)
under N2 in a mixture of DMSO and water (10 mL/10 mL) was added
4-(aminomethyl)benzenethiol (1.23 g, 8.83 mmol), and the reaction
was stirred at rt for 3 h while monitored by vis/NIR spectropho-
tometry. After complete conversion of the starting material, water was
evaporated from the reaction mixture on rotavapor and the residue was
cooled to rt and then poured into ethyl acetate (300 mL) while
stirring. The precipitated product was filtered and dried under vacuum.
The obtained crude product was then purified by reverse phase
column chromatography using water and acetonitrile as the mobile
phase to obtain the pure target dye as a green solid. (0.7 g, 52%). Mp:
240−245 °C. Vis/NIR abs, λmax: 790 nm. 1H NMR (DMSO): 8.63 (d,
J = 13.6 Hz, 2H), 8.36 (s, 2H), 7.72 (d, 2H), 7.62 (d, J = 8.0 Hz, 2H),
7.47 (m, J = 8.0 Hz, 4H), 7.32 (d, J = 8.0 Hz, 2H), 6.41(d, J = 14.0 Hz,
2H), 4.24 (s, 4H), 3.92 (br s, 2H), 3.58 (t, 4 H), 3.10 (s, 18H), 2.82
(br s, 4H), 2.15 (br s, 4H), 1.92 (s, 2H), 1.44 (s, 12H)). 13C NMR
(DMSO): 172.79, 149.88, 145.96, 145.66, 142.33, 140.95, 137.51,
134.62, 132.20, 130.89, 126.60, 120.25, 111.07, 102.87, 62.83, 52.90,
49.33, 41.98, 40.88, 27.74, 26.49, 21.34. LCMS ESI TOF calcd for
+
LCMS ESI TOF calcd for C49H63N4O8S3 : m/z 932.2483 ([M + H]+).
Found: m/z 466.1337 [M + H/2]+.
Mono(2-((E)-2-((E)-2-((4-(carboxymethyl)phenyl)thio)-3-((E)-2-
(3,3-dimethyl-5-sulfonato-1-(3-(trimethylammonio)propyl)indolin-
2-ylidene)ethylidene)cyclohex-1-en-1-yl)vinyl)-3,3-dimethyl-1-(3-
(trimethylammonio)propyl)-3H-indol-1-ium-5-sulfonate) Tribro-
mide (9). To a solution of the chloro dye 3 (0.5 g, 0.61 mmol)
under N2 in a mixture of DMSO and water (10 mL/10 mL) was added
2-(4-mercaptophenyl)acetic acid (0.26g, 1.52 mmol), and the reaction
was stirred at rt for 1 h while monitoring by vis/NIR
spectrophotometry. After complete conversion of the starting material,
water was evaporated from the reaction mixture on rotavapor and the
residue was cooled to rt and then poured into ethyl acetate (300 mL)
while stirring. The precipitated product was filtered and dried under
vacuum. The obtained crude product was then purified by reverse
phase column chromatography using water and methanol as the
mobile phase to obtain the pure target dye as a green solid (0.42 g,
71%). Mp: 248−250 °C. Vis/NIR abs, λmax: 791 nm. 1H NMR
(DMSO): 8.64 (d, J = 14 Hz, 2H), 7.70 (s, 4H), 7.59 (d, J = 8.4, 2H),
7.41(d, J = 8.4 Hz, 2H), 7.22 (s, 4H), 6.37 (d, J = 14 Hz, 2H), 4.21 (s,
4H), 3.51 (br s, 4H), 3.08 (s, 18 H), 2.79 (br s, 4H), 2.14 (br s, 4H),
1.92 (s, 2H), 1.38 (s, 12H)). 13C NMR (DMSO): 172.88, 172.65,
150.64, 146.18, 145.80, 142.30, 140.98, 135.27, 134.62, 133.49, 131.19,
126.69, 126.55, 120.19, 111.02, 102.76, 63.03, 53.06, 49.35, 41.63,
+
C49H66N5O6S3 : m/z 917.4242 ([M + H]+). Found: m/z 458.1678 [M
+ H/2]+.
Synthesis of Linkers. O-(4-Cyanophenyl) Dimethylcarbamo-
thioate (15). A 250 mL flask equipped with a magnetic stirring bar was
charged with 4-hydroxybenzonitrile (5.0 g, 41.9 mmol), DABCO (9.41
g, 83.8 mmol), and 10 mL of DMF. To this well stirred mixture was
added N,N-dimethylthiocarbamoyl chloride (6.21 g, 50.28 mmol). The
resulting mixture was heated to 65 °C and monitored by TLC until
complete disappearance of the starting material. The reaction mixture
was poured into a beaker containing ice, and the pH of the solution is
reduced to 2 by adding HCl. The crystals formed are filtered, and
further purification is accomplished by recrystallization in ethanol to
afford the pure compound 15 as a cream white solid (8.0 g, 93%). 1H
NMR (CDCl3): 7.67 (d, J = 8.0 Hz, 2H), 7.18 (d, J = 8.0 Hz, 2H),
3.42 (s, 3H), 3.33 (s, 3H). 13C NMR (CDCl3): 186.30, 157.10, 133.36,
124.22, 118.38, 109.62, 43.38, 39.01.
S-(4-Cyanophenyl) Dimethylcarbamothioate (16). To a 250 mL
round-bottom flask equipped with a magnetic stir bar and a reflux
condenser was charged with O-(4-cyanophenyl) dimethylcarbamo-
thioate (4.80 g, 23.27 mmol). The contents of the flask were
maintained under N2 and immersed in a preheated oil bath maintained
at 200 °C while stirring. The reaction was monitored by TLC, and
complete disappearance of the starting material was observed after 4 h
of reaction. After completion of the reaction, the content of the flask
solidified when cooled to rt. This provided the pure product 16 which
was used in the next step without further purification ((4.50 g, 94%).
1H NMR (CDCl3): 7.64−7.58 (m, J = 8.0 Hz, 4H), 3.08−3.03 (d,
+
27.81, 26.56, 21.39. LCMS ESI TOF calcd for C50H65N4O8S3 : m/z
946.4031([M + H]+). Found: m/z 473.1717 [M + H/2]+.
Mono(2-((E)-2-((E)-2-((4-aminophenyl)thio)-3-((E)-2-(3,3-dimeth-
yl-5-sulfonato-1-(3-(trimethylammonio)propyl)indolin-2-ylidene)-
ethylidene)cyclohex-1-en-1-yl)vinyl)-3,3-dimethyl-1-(3-
(trimethylammonio)propyl)-3H-indol-1-ium-5-sulfonate) Tribro-
mide (10). To a solution of the chloro dye 3 (1.0 g, 0.91 mmol) in
a mixture of DMSO and water (15 mL/15 mL) under N2, was added
4-aminothiophenol (0.68 g, 5.45 mmol), and the reaction mixture was
stirred at rt for 17h while monitoring by vis/NIR spectrophotometry.
Water was evaporated from the reaction mixture on rotavapor, the
residue was cooled to rt and was then poured into ethyl acetate (200
mL) while stirring. The precipitated product was filtered and dried
under vacuum. The obtained crude product was then dissolved in
water (30 mL) and was washed with dichloromethane (3 × 40 mL)
followed by ethyl acetate (3 × 40 mL) and the aqueous layer was
6H). 13C NMR (CDCl3): 164.83, 136.36, 133.24, 118.40, 112.45,
37.05
4-Mercaptobenzonitrile (17). To a 250 mL round-bottom flask
equipped with a magnetic stir bar was added S-(4-cyanophenyl)
dimethylcarbamothioate 13 (4.0 g, 19.4 mmol) and dissolved in THF.
To this solution was added KOH (2.40 g, 16.27 mmol) dissolved in
MeOH, and this was stirred at rt for 3 h while monitoring with TLC.
After completion of the hydrolysis, the mixture was poured into
crushed ice, acidified with HCl to attain a pH value of 2, and stirred
H
J. Med. Chem. XXXX, XXX, XXX−XXX