H.-A. Wagenknecht et al.
3.30 mL dry triethylamine (24 mmol) were added slowly. After the acetyl-CH3), 1.92–1.98 (m, 2 H, -CH2), 2.06 (s, 3 H, N-acetyl-CH3),
FULL PAPER
mixture was stirred for 2 d at room temp., the resulting precipitate
was collected by filtration under reduced pressure and washed with
diethyl ether (3ϫ10 mL) and methanol (3ϫ5 mL). The obtained
solid was recrystallized from DCM/MeOH = 10:1 to afford 11 as
a green solid product (1.55 g, 75%). 1H NMR (600 MHz; [D6]-
DMSO): δ = 1.96 (quint, 2 H, -CH2-), 3.69 (s, 3 H, N-Me), 3.48
(q, 2 H, -CH2-OH), 4.56 (t, 2 H, N-CH2-), 4.77 (t, 1 H, OH), 6.46
(d, 1 H, trimethine-H), 7.06 (d, 1 H, trimethine-H), 7.24 (t, 1 H,
arom.), 7.42 (t, 1 H, arom.), 7.52 (d, 1 H, arom.), 7.66 (t, 1 H,
arom.), 7.78 (d, 1 H, arom.), 7.83, (d, 1 H, arom.), 7.91 (t, 1 H,
arom.), 8.02 (d, 1 H, arom.), 8.09 (t, 1 H, trimethine-H), 8.32 (d,
1 H, arom.), 8.41 (d, 1 H, arom.) ppm. 13C NMR (600 MHz; [D6]-
DMSO): δ = 31.6 (propyl), 32.8 (N-Me6), 51.4 (propyl), 57.6 (pro-
pyl),98.7, 109.2, 109.5, 112.4, 117.7, 122.5, 124.0, 124.3, 124.6,
125.1, 126.5, 127.5, 133.2, 137.8, 141.9, 142.3, 143.7, 150.3, 161.6
ppm. ESI-MS: m/z (%) = 375.0 (100) [M+]. HR-MS (FAB): found:
m/z = 375.1532 [M]+, calcd. 375.1526.
3.93 (t, 2 H, O-CH2-), 4.49 (t, 2 H, N-CH2-), 5.67 (d, 1 H, methin-
H), 7.52–7.57 (m, 2 H, benzothiazol arom.), 7.63–7.81 (m, 5 H,
arom.), 8.17 (d, 1 H, benzothiazol arom.), 8.33 (dd, 1 H, benzothia-
zol arom.), 8.84 (d, 1 H, methine-H) ppm. ESI-MS: m/z (%) =
394.9 (84) [M+].
Synthesis of Compound 15: 1) Under nitrogen, 14 (1.0 g, 2 mmol)
and 4 (0.57 g, 2 mmol) were dissolved in 20 mL dry DCM and
1.66 mL dry triethylamine (12 mmol) were added slowly. After the
mixture was stirred for 3 d at room temperature, the resulting pre-
cipitate was collected by filtration under reduced pressure to afford
a dark blue solid (0.63 g, 58%). 2) The obtained blue solid was
dissolved in 25 mL of MeOH/NM3 (32%) = 2:3 and refluxed for
4 h. The resulting product was collected by filtration under reduced
pressure and washed with dry DCM (2ϫ5 mL) to afford 15 as a
1
dark green solid (0.51 g, 87%). H NMR (600 MHz; [D6]DMSO):
δ = 1.88 (quint, 2 H, -CH2-), 3.54 (q, 2 H, -CH2-O), 4.13 (s, 3 H,
N-Me), 4.25 (t, 2 H, N-CH2), 4.83 (t, 1 H, OH), 6.49 (d, 1 H,
trimethine-H), 7.09 (d, 1 H, trimethine-H), 7.27 (t, 1 H, arom.),
7.45 (t, 1 H, arom.), 7.52 (d, 1 H, arom.), 7.70 (m, 1 H, arom.),
7.82 (m, 1 H, arom.), 7.83 (d, 1 H, arom.), 7.96 (m, 1 H, arom.),
7.97 (m, 1 H, arom.), 8.11 (t, 1 H, trimethine-H), 8.38 (d, 1 H,
arom.), 8.45 (d, 1 H, arom.) ppm. 13C NMR (600 MHz; [D6]-
DMSO): δ = 30.0 (propyl), 42.2 (TO3), 42.9 (propyl), 57.6 (propyl),
98.2, 109.5, 109.3, 112.2, 117.9, 122.4, 123.9, 124.0, 124.6, 124.8,
126.7, 127.5, 133.2, 138.8, 141.5, 143.2, 143.6, 150.4, 160.7 ppm.
ESI-MS: m/z (%) = 375.0 (100) [M+]. HR-MS (FAB): found: m/z
= 375.1524 [M]+, calcd. 375.1526.
Synthesis of Compound 12: Under nitrogen, 11 (0.5 g, 1.0 mmol)
was dissolved in 40 mL dry DMF and 1,1Ј-carbodiimidazole
(0.33 g, 2 mmol) was added. After stirring at room temperature for
6 d, 6 (0.78 g, 2 mmol) was added and again stirred for 7 d at room
temp. The solvent was then removed under reduced pressure and
the resulting solid purified by flash-column-chromatography (SiO2,
DCM/MeOH, 10:1 + 10% pyridine). Compound 12 was obtained
as a blue solid (0.80 g, 87%). T.l.c. (DCM/MeOH, 10:1) Rf = 0.38.
1H NMR (300 MHz; [D6]DMSO): δ = 2.08–2.12 (m, 2 H, -CH2-),
2.83–2.86 and 2.88–2.92 (m, 1 H, -CH2-ODMT), 2.95–2.99 and
3.15–3.24 (m 1 H, NH-CH2-), 3.70 (s, 6 H, 2ϫOMe), 3.74 (s, 1
H, -CH-OH), 3.97–4.01 (t, 2 H, -CH2-O), 4.55–4.59 (t, 2 H, N-
CH2-), 4.98 (d, 1 H, OH), 6.51 (d, 1 H, TO-3), 6.86 (d, 4 H, arom.
DMT), 7.01 (t, 1 H, TO-3), 7.11 (m, 1 H, TO-3), 7.23–7.26 (m, 7
H, arom. DMT), 7.50 (t, 1 H, TO-3 arom.), 7.61 (d, 1 H, TO-3
arom.), 7.70 (t, 1 H, TO-3 arom.), 7.84–7-89 (m, 2 H, TO-3 arom.),
7.95–7.96 (m, 1 H, TO-3 arom.), 8.02–8.05 (m, 1 H, TO-3 arom.),
8.18 (t, 1 H, TO-3), 8.33 (d, 1 H, TO-3 arom.), 8.47 (d, 1 H, TO-
3 arom.) ppm. 13C NMR (600 MHz; [D6]DMSO): δ = 28.3, 30.7,
32.9, 35.7, 44.2, 54.9, 60.5, 65.6, 68.7, 85.1, 99.1, 108.2, 109.2,
112.6, 113.0, 114.9, 115.9, 117.6, 122.5, 123.8, 124.2, 124.6, 125.2,
126.5, 127.6, 129.6, 133.4, 135.7, 137.8, 141.9, 145.0, 156.0, 157.9,
162.2 ppm. ESI-MS: m/z (%) = 794.2 (100) [M+]. HR-MS (FAB):
found: m/z = 794.3270 [M]+, calcd. 794.3258.
Synthesis of Compound 16: Under nitrogen, 15 (0.5 g, 1.0 mmol)
was dissolved in 40 mL dry DMF and 0.33 g 1,1Ј-carbodiimidazole
(2 mmol) were added. After stirring at room temp. for 2 d, 6
(0.78 g, 2 mmol) was added and again stirred for 2 d at room temp.
The solvent was then removed under reduced pressure and the re-
sulting solid purified by flash-column chromatography (SiO2,
DCM/MeOH, 10:1 + 10% pyridine). Compound 16 was obtained
as a blue solid (0.83 g, 90%). T.l.c. (DCM/MeOH, 10:1) Rf = 0.38.
1H NMR (300 MHz; [D6]DMSO): δ = 1.99–2.03 (m, 2 H, -CH2-),
2.88–2.99 (m, 2 H, CH2-ODMT), 3.18–3.26 (m, 2 H, NH-CH2),
3.33 (s, 1 H, NH), 3.70 (s, 6 H, 2ϫOMe), 3.73 (s, 1 H, -CH-OH),
5.02 (d, 1 H, OH), 6.47 (d, 1 H, methine-H), 6.84 (m, 4 H, arom.
DMT), 7.08–7.13 (m 1 H, TO-3), 7.20–7.24 (m, 7 H, arom. DMT),
7.26–7.32 (m 2 H, TO-3 arom.), 7.43–7.56 (m, 2 H, TO-3 arom.),
7.64–7.69 (m, 1 H, TO-3 arom.), 7.85–7.90 (m, 2 H, TO-3 arom.),
7.93–8.02 (m, 3 H, TO-3 arom.), 8.10–8.18 (m 1 H, TO-3) ppm.
13C NMR (400 MHz; [D6]DMSO): δ = 26.5, 30.7, 35.7, 42.2, 44.3,
54.9, 65.6, 68.7, 85.1, 98.0, 109.5, 109.8, 112.1, 113.0, 118.1, 122.5,
123.8, 124.0, 124.6, 126.4, 127.6, 129.6, 133.3, 135.7, 138.1, 141.3,
143.4, 145.0, 157.9, 162.2 ppm. ESI-MS: m/z (%) = 794.2 (100)
[M+]. HR-MS (FAB): found: m/z = 794.3242 [M]+, calcd. 794.3258.
Synthesis of DNA Building Block 13: Under argon, 12 (0.3 g,
0.33 mmol) and dry 166 µL DIPEA (0.97 mmol) were dissolved in
10 mL dry DCM. Then, 125 µL 2-cyanoethyl N,N-diisopropylchlo-
rophosphoramidite (0.56 mmol) were added, the mixture was
stirred at room temperature for 16 h. After complete reaction, the
organic phase was washed with a satd. aq. NaHCO3, dried with
Na2SO4 and the solvents evaporated to dryness. The resulting dark
blue solid was solved in dry MeCN (3.5 mL) and applied directly
for automated DNA synthesis. T.l.c. Rf (CH2Cl2/acetone = 2:1) =
0.3. 31P NMR (121 MHz, DMSO): δ = 150.06, 149.70 ppm.
Synthesis of DNA Building Block 17: Under argon, 16 (0.3 g,
0.33 mmol) and 166 µL dry DIPEA (0.97 mmol) were dissolved in
10 mL dry DCM. After 125 µL 2-cyanoethyl N,N-diisopropylchlor-
ophosphoramidite (0.56 mmol) were added, the reaction mixture
was stirred at room temp. for 16 h. After complete reaction, the
organic phase was washed with satd. aq. NaHCO3, dried with
Na2SO4 and the solvents evaporated to dryness. The resulting dark
blue solid was solved in dry MeCN (3.5 mL) and applied directly
for automated DNA synthesis. T.l.c. Rf (CH2Cl2/acetone = 2:1) =
0.3. 31P NMR (121 MHz, DMSO): δ = 150.06, 149.70 ppm.
Synthesis of Compound 14: Compound 3 (3.31 g, 9.8 mmol) in dry
acetic anhydride (30 mL) was refluxed until completely dissolved.
Afterwards, N,N-diphenylformamidine (1.93 g, 9.8 mmol) was
added and refluxed again for 1 h. The mixture was cooled to room
temp. and 40 mL diethyl ether were added slowly. After the re-
sulting oil has been separated and dried under reduced pressure for
24 h, it was resolved in DCM and washed with water (4ϫ). 2.9 g
of a dark red oil 14 were obtained (62%). Unfortunatly, the purifi-
cation of this compound was never sufficient to provide all analyti-
Preparation of DNA: Oligonucleotides were prepared with an Expe-
dite 8909 Synthesizer from Applied Biosystems (ABI) using stan-
dard phosphoramidite chemistry. Reagents and CPG (1 µmol) were
1
cal data. H NMR (300 MHz; [D6]DMSO): δ = 1.79 (m, 3 H, O-
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Eur. J. Org. Chem. 2010, 1239–1248