Journal of Medicinal Chemistry
Article
30 min until complete by analytical HPLC−MS. The crude material
was concentrated in vacuo and directly treated with 7 N NH3 in
methanol at room temperature for 1 h. The material was purified by
preparative HPLC (method 1) to yield the product as a light solid.
Yield: 81.0 mg (52%). 1H NMR (400 MHz, CH3OD) δ ppm 2.06 (m,
J = 6.71, 6.71, 2.64 Hz, 1 H) 2.40 (ddd, J = 13.55, 9.29, 5.52 Hz, 1 H),
3.70 (dd, J = 12.42, 3.64 Hz, 1 H), 3.95 (dd, J = 12.30, 2.76 Hz, 1 H),
4.53−4.61 (m, 1 H), 4.74−4.81 (m, 1 H), 6.17 (d, J = 2.01 Hz, 1 H),
8.89 (s, 1 H), 8.95 (s, 1 H), 9.10 (s, 1 H). ESI-MS (m/z): 237 [M +
H]+.
methyl benzoate (235 mg, 0.54 mmol) was dissolved in 20 mL of fresh
7 N methanolic ammonia and the sealed reaction allowed to stir at
room temperature for 24 h. The resulting clear solution was
evaporated in vacuo, and the resulting solid material was recrystallized
from boiling water over 48 h (100 °C → room temperature, 24 h;
room temperature → 5 °C, 24 h). The resulting white crystals were
collected by vacuum filtration and washed with two portions of ice-
cold methanol and two portions of diethyl ether followed by drying
1
under vacuum to yield analytically pure 10 in 38% yield. H NMR
(400 MHz, DMSO-d6) δ ppm 1.90 (ddd, J = 13.07, 6.25, 2.91 Hz, 1
H), 2.22 (ddd, J = 13.20, 8.91, 5.68 Hz, 1 H), 3.52 (ddd, J = 11.94,
5.49, 4.04 Hz, 1 H), 3.69 (ddd, J = 12.13, 5.43, 3.41 Hz, 1 H), 4.31−
4.39 (m, 1 H), 4.49−4.55 (m, 1 H), 5.02 (t, J = 5.56 Hz, 1 H), 5.68 (d,
J = 4.29 Hz, 1 H), 5.80 (d, J = 2.27 Hz, 1 H), 7.81 (br s, 2 H), 8.38 (s,
1 H). 13C NMR (101 MHz, DMSO-d6) δ = 156.7, 152.9, 149.9, 139.4,
118.0, 90.6, 80.9, 74.8, 62.3, 33.8. ESI-MS (m/z): 286 [M + H]+.
(2R,3R,5S)-2-(6-Amino-2-((2-hydroxyethyl)amino)-9H-purin-9-yl)-
5-(hydroxymethyl)tetrahydrofuran-3-ol (11). (2R,3R,5S)-2-(6-
Amino-2-fluoro-9H-purin-9-yl)-5-(hydroxymethyl)oxolan-3-ol (1b)
(20.0 mg, 0.07 mmol) was dissolved in dioxane (2 mL), and
ethanolamine (23.0 mg, 0.37 mmol) was added. The mixture was
heated to 100 °C for 20 h in a sealed stem block tube. The crude
material was concentrated in vacuo and purified by preparative HPLC
(method 1) to yield the product as a clear waxy solid. Yield: 18.0 mg
Synthesis of 2-Fluoro-3′-deoxyadenine Arabinoside (6).48
((2R,3R,4R,5R)-5-(6-Amino-2-fluoro-9H-purin-9-yl)-3-
((methylsulfonyl)oxy)-4-(pivaloyloxy)tetrahydrofuran-2-yl)methyl
Pivalate. Fluoroadenosine (285 mg, 1.00 mmol) was dissolved in
pyridine (20 mL) and cooled to −15 °C. Pivaloyl chloride (376 mg,
3.12 mmol) was added in one portion and the mixture allowed to stir
for 2 h at 0 °C. Methanesulfonyl chloride (252 mg, 2.20 mmol) was
added. The mixture was allowed to rise to room temperature and was
stirred at room temperature for 3 h. The reaction was quenched with
ice−water and the product extracted twice with ethyl acetate.
Combined organic fractions were washed with saturated sodium
bicarbonate, brine and dried over anhydrous MgSO4. The solution was
filtered and concentrated in vacuo. Residual pyridine was removed by
coevaporation with toluene. The crude material was purified by
column chromatography on silica gel using dichloromethane/
methanol (100:0 to 95:5). Yield: 417 mg (78%). 1H NMR (400
MHz, CDCl3) δ ppm 1.18 (s, 9 H), 1.25 (s, 9 H), 1.26 (s, 9 H), 3.16
(s, 3 H), 4.34−4.48 (m, 2 H), 4.52−4.58 (m, 1 H), 5.69 (t, J = 5.52
Hz, 2 H), 5.92 (dd, J = 5.40, 4.39 Hz, 1 H), 6.05 (d, J = 4.52 Hz, 1 H),
7.90 (s, 1 H), 8.63 (br s, 2 H). ESI-MS (m/z): 532 [M + H]+.
(2R, 3S, 5S)-2-(6-Amino-2-fluoro-9H-purin-9-yl)-5-
(hydroxymethyl)tetrahydrofuran-3-ol (6). ((2R,3R,4R,5R)-5-(6-
Amino-2-fluoro-9H-purin-9-yl)-3-((methylsulfonyl)oxy)-4-
(pivaloyloxy)tetrahydrofuran-2-yl)methyl pivalate (417 mg; 0.78
mmol) was dissolved in anhydrous DMSO/THF (1:1, 5 mL) and
cooled to 0 °C. Lithium triethylborohydride (1 M in THF; 4 mL, 4.00
mmol) was added dropwise and the mixture stirred at room
temperature for 20 h. The reaction was quenched with 1 mL of 5%
acetic acid (aqueous) and treated with tetrabutylammonium hydroxide
(2.60 g, 10.0 mmol). The mixture was allowed to stir for 3 h, then
concentrated in vacuo and the product isolated by column
chromatography on silica gel using methanol (0−20%) in ethyl
acetate as gradient to yield the desired product. Yield: 83 mg (39%).
1H NMR (400 MHz, DMSO-d6) δ ppm 1.98 (dt, J = 12.80, 8.16 Hz, 1
1
(78%). H NMR (400 MHz, DMSO-d6) δ ppm 1.86−1.95 (m, 1 H),
2.21−2.35 (m, 1 H), 3.27−3.35 (m, 2 H), 3.49 (m, J = 4.55 Hz, 1 H),
3.44−3.54 (m, 3 H), 3.57−3.65 (m, 1 H), 4.24−4.32 (m, 1 H), 4.54−
4.60 (m, 1 H), 5.69 (d, J = 2.53 Hz, 1 H), 6.07 (t, J = 1.00 Hz, 1 H),
7.89 (s, 1 H). 13C NMR (101 MHz, DMSO-d6) δ ppm 159.4, 156.0,
151.1, 135.9, 113.4, 90.3, 80.2, 74.3, 63.1, 60.3, 43.9, 40.0. ESI-MS (m/
z): 311 [M + H]+.
Ab Initio Calculation of pKa Values. All calculations in Figure 5
were performed using ChemAxon software (version 6.0) and
Schrodinger Suite 2012 (Schrodinger Suite 2012, Maestro, version 9.3;
̈
̈
Schrodinger, LLC: New York, NY, 2012.) using the Maestro interface
̈
for the Microsoft Windows 7 platform. pKa calculations were
performed using Jaguar (version 7.9). This is a quantum chemical
method (density functional theory) with empirical correction. The
workflow in Jaguar was used starting with a conformational serach
using MacroModel, version 9.9, before pKa calculations. Jaguar
calculates microscopic (atomic) pKa values. The pKa values for the
three nitrogens N1, N3, and N7 in all three compounds, differing in
the C2 substituent H, F, or Cl, were calculated. Default settings with
water as solvent were used.
H), 2.25 (dt, J = 12.74, 6.56 Hz, 1 H), 3.53−3.70 (m, 2 H), 4.07 (dd, J
= 4.14, 1.88 Hz, 1 H), 4.46−4.56 (m, 1 H), 5.11 (t, J = 4.77 Hz, 1 H),
5.41 (d, J = 4.77 Hz, 1 H), 6.00 (d, J = 5.52 Hz, 1 H), 7.79 (br s, 2 H),
8.28 (s, 1 H). ESI-MS (m/z): 270 [M + H]+.
Parasite and Mammalian Cell Cultures. T. b. brucei
(AnTat1.1E) (an animal-infecting subspecies of T. brucei), T. b.
rhodesiense (STIB 851), and T. b. gambiense (MBA)29,32 were kindly
provided by P. Buscher (Institute of Tropical Medicine, Antwerp,
̈
Synthesis of 2-Chlorocordycepin (10) and 2-(2-
Hydroxyethylamino)cordycepin (11). ((2S,4R,5R)-4-Acetoxy-5-
(6-amino-2-chloro-9H-purin-9-yl)tetrahydrofuran-2-yl)methyl Ben-
zoate (16). 2-Chloroadenine (100 mg; 0.59 mmol) was suspended in
3 mL of anhydrous CH3CN in a small stem block tube, and N,O-
bis(trimethylsilyl)acetamide (180 mg, 0.89 mmol) was added. The
reaction tube was flushed with nitrogen and sealed. The mixture was
heated at 80 °C while stirring vigorously until homogeneous. The
mixture was then cooled to 0 °C, and [(2S,4R,5S)-4,5-bis(acetyloxy)-
oxolan-2-yl]methyl benzoate (190 mg, 0.59 mmol) dissolved in 2 mL
of CH3CN was added in one portion. The mixture was stirred for 5
min, followed by the dropwise addition of trimethylsilyl triflate (157
mg, 0.71 mmol, 128 μL). The mixture was heated to 80 °C for 1 h.
The mixture was cooled to room temperature, quenched by pouring
into saturated NaHCO3, and extracted with 3 × 30 mL of ethyl
acetate. The combined organic fractions were washed with water, brine
and dried over MgSO4. The crude was evaporated in vacuo to yield
235 mg (93%) of the desired product as an off-white solid. The
material was used directly without further characterization or
purification.
Belgium), were cultured at 37 °C and 5% CO2 in HMI-9 medium
Iscove’s modified Dulbecco’s medium (IMDM, Hyclone) containing
10% heat-inactivated calf serum (Invitrogen, Carlsbad, CA), 28 mM 4-
(2-hydroxyethyl)-1-piperazineethanesulfonic acid (HEPES), 0.14%
glucose, 1.5% sodium bicarbonate, 2 mM L-glutamine, 0.14 mg/mL
gentamicin, 0.3 mM dithiothreitol (DTT), 1.4 mM sodium pyruvate,
0.7 mM L-cysteine, 28 μM adenosine, 14 μM guanosine, 100 units/mL
penicillin, and 0.1 mg/mL streptomycin (Hyclone, catalog no.
SV30010). T. brucei forms were harvested by centrifugation at 2500
rpm for 6 min followed by resuspension in fresh medium. Parasites
were utilized when in the log phase of growth.
Human MOLT-4 (ATCC-CRL-1582) and mouse fibroblast L-929
(ATCC-CCL-1) cells were cultured at 37 °C and 5% CO2 in Roswell
Park Memorial Institute medium (RPMI, Hyclone) supplemented
with 10% fetal calf serum (FCS), 100 units/mL penicillin, and 0.1 mg/
mL streptomycin. Cells were harvested by centrifugation at 1500 rpm
for 6 min followed by resuspension in fresh medium.
WST-1 in Vitro Cell Viability Assay. Compounds evaluated were
prepared as 10 mM stock solutions in dimethylsulfoxide (DMSO) and
diluted to the appropriate concentrations with IMDM and 10% FCS
(Hyclone) as previously described.49 For dose−response evaluation,
compound stocks were initially serial-diluted with 100% DMSO in 11
(2R,3R,5S)-2-(6-Amino-2-chloro-9H-purin-9-yl)-5-
(hydroxymethyl)tetrahydrofuran-3-ol (10). Crude ((2S,4R,5R)-4-
acetoxy-5-(6-amino-2-chloro-9H-purin-9-yl)tetrahydrofuran-2-yl)-
J
dx.doi.org/10.1021/jm401530a | J. Med. Chem. XXXX, XXX, XXX−XXX