Bis- and Tris-Alkyne Phosphoramidites by Click Chemistry
13C NMR (75 MHz, CDCl3): δ = 17.3, 40.4, 58.7, 68.3, 74, 74.4,
79.7 ppm. HRMS (ESI+): calcd. for C11H17O3 [M + H]+ 197.1175;
found 197.1178.
moiety, or carbohydrate residues by using their azide deriv-
atives. These phosphoramidites contribute to the elabora-
tion of new building blocks for the multiple conjugation of
oligonucleotides by the very efficient CuAAC reaction.
2,2-Bis(propargyloxymethyl)propyl 2-Cyanoethyl N,N-Diisoprop-
ylphosphoramidite (5): To a solution of anhydrous 2,2-bis(propargyl-
oxymethyl)propan-1-ol (4; 2.7 mmol, 530 mg) and diisopropyl-
ethylamine (4.05 mmol, 705 μL) in anhydrous CH2Cl2 (30 mL) was
added 2-cyanoethyl chlorophosphoroamidite (3.25 mmol, 720 μL).
The resulting mixture was stirred for 45 min at room temperature.
Then, the reaction was quenched with H2O (1 mL), diluted with
CH2Cl2 (100 mL), and washed with NaHCO3 (3ϫ40 mL). The or-
ganic layer was dried (Na2SO4), filtered, and concentrated. The
crude product was purified by silica gel column chromatography (0
to 30% CH2Cl2 in cyclohexane containing 5% triethylamine) to
afford 5 (0.87 g, 82%) as clear oil. Rf = 0.5 (cyclohexane/AcOEt/
Et3N, 7:2:1). 1H NMR (200 MHz, CDCl3): δ = 1.02 (s, 3 H, CH3C),
1.23 (d, J = 6.8 Hz, 12 H, CH3 ipr), 2.45 (t, J = 2.4 Hz, 2 H, CCH),
2.69 (t, J = 6.4 Hz, 2 H, CH2CN), 3.44 (s, 4 H, CCH2Opropargyl),
3.51–3.91 [m, 6 H, CH(ipr), OCH2CH2, CCH2OP], 4.17 (d, J =
2.4 Hz, 4 H, CH2CCH) ppm. 13C NMR (100 MHz, CDCl3): δ =
17.3, 20.4, 24.5, 24.7, 40.8, 43.0, 43.2, 58.2, 58.4, 58.6, 66.0, 72.5,
74.1, 80.0, 117.6 ppm. 31P NMR (81 MHz, CDCl3): δ = 147.7 ppm.
HRMS (ESI+): calcd. for C20H34N2O4P [M + H]+ 397.2256; found
397.2246
Experimental Section
Bis(pent-4-ynyl) N,N-Diisopropylphosphoramidite (1): To a solution
of anhydrous pent-4-yn-1-ol (5.4 mmol, 500 μL) and anhydrous
Et3N (6 mmol, 826 μL) in dry CH2Cl2 (5 mL), stirred at 0 °C under
an atmosphere of argon, was added a solution of diisopropylphos-
phorodichloridite (2 mmol, 550 mg) in dry CH2Cl2 (5 mL). The re-
sulting mixture was stirred for 4 h at room temperature, diluted
with CH2Cl2 (100 mL), filtered to remove the triethylammonium
chloride salt, and washed with NaHCO3 (1ϫ150 mL). The organic
layer was dried (Na2SO4), filtered, and concentrated. The crude
product was purified by silica gel column chromatography (0 to
50% CH2Cl2 in cyclohexane containing 10% triethylamine) to af-
ford the title compound (0.50 g, 83%) as a clear oil. Rf = 0.60
(cyclohexane/AcOEt/Et3N, 5:4:1). 1H NMR (300 MHz, CD3CN):
δ = 1.18 (d, J = 6.8 Hz, 12 H, 4 CH3), 1.73–1.82 (m, 4 H, 2
CH2CH2CH2), 2.16–2.19 (t, J = 2.6 Hz, 2 H, 2 CCH), 2.29 (dt, Jd
= 2.6 Hz, Jt = 7.1 Hz, 4 H, 2 CH2CH2CCH), 3.54–3.77 (m, 6 H, 2
OCH2, 2 CHMe2) ppm. 13C NMR (300 MHz, CDCl3): δ = 14.2,
23.6, 29.8, 42.3, 61.2, 68.6, 83.5 ppm. 31P NMR (121 MHz,
CD3CN): δ = 146.25 ppm. HRMS (ESI+): calcd. for C16H29O2NP
[M + H]+ 298.1915; found 298.1936.
2-Cyanoethyl 2,2,2-Tris(propargyloxymethyl)ethyl N,N-Diisoprop-
ylphosphoramidite (7): To a solution of anhydrous 2,2,2-tris(prop-
argyloxymethyl)ethan-1-ol (6;[23] 2.8 mmol, 700 mg) and diisoprop-
ylammonium tetrazolide (1.4 mmol, 240 mg) in anhydrous CH2Cl2
(10 mL) was added 2-cyanoethyl tetraisopropylphosphorodiamidite
(3.4 mmol, 1.1 mL). The resulting mixture was stirred for 5 h at
room temperature, diluted with CH2Cl2 (50 mL), and washed with
brine (2ϫ150 mL). The organic layer was dried (Na2SO4), filtered,
and concentrated. The crude product was purified by silica gel col-
umn chromatography (15 to 50% CH2Cl2 in cyclohexane contain-
ing 5% triethylamine) to afford 7 (1.0 g, 94%) as clear oil. Rf = 0.45
(cyclohexane/CH2Cl2/Et3N, 6:3:1). 1H NMR (400 MHz, CDCl3): δ
= 1.18–1.20 (dd, J = 7 Hz, 12 H, 4 CH3), 2.41 (t, J = 2.3 Hz, 3 H,
3 CCH), 2.63–2.67 (m, 2 H, CH2CN), 3.53 (s, 6 H, 3 CCH2O),
3.55–3.67 (m, 4 H, POCH2C, 2 CHMe2), 3.81–3.89 (m, 2 H,
OCH2CH2), 4.14 (d, J = 2.3 Hz, 6 H, 3 OCH2CCH) ppm. 13C
NMR (100 MHz, CDCl3): δ = 20.4, 24.7, 43.2, 45.1, 58.2, 58.4,
58.7, 68.6, 74.2, 80.0, 117.73 ppm. 31P NMR (121 MHz, CDCl3): δ
= 147.6 ppm. HRMS (ESI+): calcd. for C23H36N2O5P [M + H]+
451.2362; found 451.2373.
1-(4,4Ј-Dimethoxytrityloxymethyl)-2,2-bis(propargyloxymethyl)prop-
ane (3): To a cold solution of 1-(4,4Ј-dimethoxytrityloxymethyl)-
2,2-bis(hydroxymethyl)propane[21] (13.25 mmol, 5.6 g) in anhy-
drous THF (200 mL) was added NaH (60% in oil, 200 mmol,
8.0 g), and after 10 min propargyl bromine (80% in toluene,
106 mmol, 11.8 mL) was added. The mixture was stirred at 40 °C
overnight. Then, the reaction was cooled to 0 °C, quenched with
H2O (20 mL), and poured into H2O (400 mL). The aqueous layer
was extracted with CH2Cl2 (3ϫ150 mL), and the organic layers
were pooled, washed with brine, and concentrated. The crude oil
was used directly for the next step or purified by silica gel column
chromatography (50 to 100% CH2Cl2 in cyclohexane) to afford the
title compound as a clear oil. Rf = 0.6 (cyclohexane/AcOEt, 1:1).
1H NMR (300 MHz, CDCl3): δ = 0.89 (s, 3 H, CCH3), 2.30 (t, J
= 2.3 Hz, 2 H, CCH), 2.89 (s, 2 H, CCH2ODMTr), 3.37 (d, J =
3.6 Hz, 4 H, CCH2Opropargyl), 3.8 (s, 6 H, OCH3), 4.0 (d, J =
2.4 Hz, 4 H, OCH2CC), 6.72–7.36 (m, 13 H, aromatic) ppm. 13C
NMR (75 MHz, CDCl3): δ = 17.8, 40.7, 55.1, 58.6, 64.7, 72.9, 74.0,
80.2, 85.4, 112.9, 126.5, 127.6, 128.3, 130.2, 136.4, 145.4,
158.3 ppm. HRMS (ESI+): calcd. for C32H34O5Na [M + H]+
521.2304; found 521.2308.
General Procedure for the Synthesis of Oligonucleotides: Oligonu-
cleotides were synthesized on a 1 μmol-scale on a DNA synthesizer
(ABI 394) starting from a commercially available solid support by
standard phosphoramidite chemistry. For the coupling step, benz-
ylmercaptotetrazole (BMT) was used as the activator (0.3 m in an-
hydrous CH3CN), commercially available nucleoside phosphor-
amidites (0.075 m in anhydrous CH3CN) was introduced with a 20 s
coupling time, alkyne phosphoramidite 1 (0.2 m in anhydrous
CH3CN) was introduced with a 60 s coupling time, and alkyne
phosphoramidites 5 and 7 (0.1 m in anhydrous CH3CN) was intro-
duced with a double coupling of 40 s each. The capping step was
performed with acetic anhydride using commercial solutions (Cap
A/Ac2O, pyridine, THF 10:10:80 and Cap B/10% N-methylimid-
azole in THF) for 15 s. Oxidation was performed with a commer-
cial solution of iodide (0.05 m I2 in THF/pyridine/water, 90:5:5) for
13 s. Detritylation was performed with 3% TCA in CH2Cl2 for 35 s.
2,2-Bis(propargyloxymethyl)propan-1-ol (4): To a cold solution of
[1-(4,4Ј-dimethoxytrityloxy)-2,2-bis(propargyloxymethyl)propane
(13.25 mmol, crude oil) in CH2Cl2 (100 mL), whilst stirring, was
added a solution of 3% TCA in CH2Cl2 (100 mL). The red mixture
was stirred for 15 min and quenched by the slow addition of an
aqueous saturated solution of NaHCO3. The aqueous layer was
extracted with CH2Cl2 (3ϫ100 mL), and the organics layers were
pooled, dried (Na2SO4), and concentrated. The crude oil was puri-
fied by silica gel column chromatography (0% to 5% MeOH in
CH2Cl2) to afford 4 (2.1 g, 80%, two steps) as a brown oil. Rf =
0.25 (cyclohexane/AcOEt, 7:3). Rf = 0.5 (MeOH/CH2Cl2, 5:95). 1H
NMR (300 MHz, CDCl3): δ = 0.84 (s, 3 H, CH3), 2.37 (t, J =
2.4 Hz, 2 H, CCH), 3.43 (d, J = 1.5 Hz, 4 H, CCH2Opropargyl), General Procedure for the Deprotection of Solid-Supported Oligonu-
3.5 (s, 2 H, CCH2OH), 4.08 (dd, J = 2.4 Hz, 4 H, OCH2CC) ppm. cleotides: CPG beads were treated with concentrated aqueous am-
Eur. J. Org. Chem. 2012, 1851–1856
© 2012 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim
www.eurjoc.org
1855