T. Ju et al. / Bioorganic Chemistry 68 (2016) 105–111
109
were constructed using Sketch and typed with the same force field.
The ligand-biding site was defined based on the binding site of
412d antibody (or the CCR5 N-terminus) (19). Docking parameters
were set up as the following: top hits numbers 10, conformation
dynamics steps 1000, annealing heating steps 2000, target temper-
ature cooling 5000. The best poses from each ligand were selected
based on the Cdocking energy scores and listed in Table 1.
which was directly used in the next synthetic step without further
purification.
a
4.6. N -[tert-butoxycarbonyl]-
L
-(O-sulfate)-tyrosyl-L-(O-sulfate)-
tyrosine di-ammonium salt (4)
To a solution of 3 (450 mg, 1 mmol) in a mixture of anhydrous
DMF (20 mL) and anhydrous pyridine (5 mL), SO3/DMF complex
(3.7 g, 24 mmol) was added. Under the protection of argon, the
reaction was allowed to stir at 25 °C for 24 h. After the removal
of solvent, a colorless residue was obtained. While being cooled
on an ice-water bath, 30 mL of water was added on to the reaction
vessel, followed by the addition of 20 mL of saturated NaHCO3 until
pH reached 4–5. Precipitation was then filtered out, and the filtrate
was reduced to an appropriate volume. The product was purified
on the diethylaminoethyl cellulose column by a gradient elution
of 1 L NH4HCO3 buffer (0–0.8 M, pH ꢀ 7.0, pH was adjusted by
dry ice) in chromatography chamber at 4 °C. The collected fractions
(8 mL in each tube) were analyzed by UV–vis spectroscopy. The
fractions with strong UV absorbance at 265 nm (corresponding to
0.3–0.6 M NH4HCO3 fractions) were combined. The solvent of the
combined pool was evaporated under reduced pressure. To the
residues, 10–20 mL of frozen-dry MeOH was added to extract the
desired compound. Evaporation of MeOH afforded a colorless solid
of diammonium salt of 4 (453 mg, 0.71 mmol, 71%). 1H NMR
(MeOD, 300 MHz): d 7.22–7.15 (m, 8H), 4.68–4.63 (dd, J = 8.0 Hz,
1H), 4.02–3.99 (dd, J = 8.0 Hz, 1H), 3.20–3.18 (m, 2H), 3.00–2.91
4.3. -Tyrosine methyl ester (5)
L
This compound was synthesized according to a procedure by
Rudolf [42]. Thionyl chloride (4 mL, 55.0 mmol) was added drop-
wise to a suspension of L-tyrosine (5.45 g, 30.1 mmol) in anhydrous
MeOH (100 mL, 247 mmol) at 0 °C under argon protection. When
half amount of thionyl chloride was added, the solution turned
clear. The reaction mixture was allowed to reach room tempera-
ture and stirred overnight. After removing the solvent by rotary
evaporation, the residue was washed with diethyl ether
(2 Â 50 mL). Compound 5 was obtained as a white solid (5.8 g,
29.2 mmol, 97%). 1H NMR (300 MHz, D2O): d 7.13 (d, J = 8.7 Hz,
2H), 6.87 (d, J = 8.7 Hz, 2H), 4.36 (dd, J = 5.7, 7.2 Hz, 1H), 3.82 (s,
3H), 3.24 (dd, J = 5.7, 14.7 Hz, 1H), 3.13 (dd, J = 7.2, 14.7 Hz, 1H).
a
4.4. N -[tert-butoxycarbonyl]-
L-tyrosine (6) [43]
L-Tyrosine (2 g, 11 mmol) was dissolved in a mixture of diox-
ane/water (50 mL/25 mL), followed by the addition of 25 mL of
NaOH (1 M). Di-tert-butyl dicarbonate (2.64 g, 12.1 mmol) was
then added and the reaction mixture was allowed to stir at room
temperature for 2 h. The reaction mixture was extracted by EtOAc
(3 Â 20 mL). The combined extraction was dried over Na2SO4. After
removing the solvent by rotary evaporation, the compound 6 was
obtained as a white solid (3 g, 10 mmol, 90%). 1H NMR (300 MHz,
CDCl3): d 7.10 (d, J = 8.3 Hz, 2H), 6.71 (d, J = 8.4 Hz, 2H), 5.25 (d,
J = 6.9 Hz, 1H), 4.52 (s, 1H, OH), 4.32–4.30 (m, 1H), 3.00–2.96 (m,
2H), 1.38 (s, 9H).
(m, 2H), 1.40 (s, 9H). ESI MS(+):
C23H28N2O13S2, theoreti-
cal = 604.10, [M+H]+ = 605.10.
4.7. L-(O-sulfate)-tyrosyl-L-(O-sulfate)-tyrosine di-ammonium salt (2)
Compound 4 (453 mg, 0.71 mmol) was dissolved in the cold
solution of TFA/water (9:1; 16 mL). The resulting reaction mixture
was stirred at 0 °C for about 40 min, until all the starting material
was completely consumed (monitored by TLC). Upon removal of
TFA by rotary evaporation, the residue, as a foaming white solid,
was washed twice by Et2O and evaporated again to further remove
TFA. To the residue, 4 mL of 0.05 M NH4HCO3 buffer (pH = 7) was
added, and a diluted ammonium hydroxide solution was applied
to adjust pH to 6–7. The product was purified by DEAE column
with a gradient elution of NH4HCO3 buffer (0–0.8 M; 1 L). The
desired compound was found in the 0.3–0.6 M NH4HCO3 fractions.
The combined fractions were evaporated by under reduced pres-
sure. To the residue, 10–20 mL of ice-cold dry MeOH was added
to extract the desired compound. Evaporation of MeOH afforded
the diammonium salt of 2 (343.8 mg, 0.64 mmol, 90%) as a color-
less solid. 1H NMR (D2O, 400 MHz): d 7.35–7.12 (m, 8H), 4.56–
4.47 (dd, J = 8.0 Hz, 1H), 4.30–4.20 (dd, J = 8.0 Hz, 1H), 3.34–3.23
(m, 2H), 3.12–2.89 (m, 2H); 13C NMR (D2O, 175 MHz): d 177.10,
168.05, 150.66, 149.81, 135.53, 131.63, 130.78, 130.39, 122.08,
121.46, 56.74, 54.02, 36.79, 36.01. HR-ESI MS(+): C18H20N2O11S2,
theoretical = 504.0508, [M+H]+ = 505.0599.
a
4.5. N -(tert-butoxycarbonyl)-
L-tyrosyl-L-tyrosine (3) [44]
To a mixture of 5 (0.7 g, 3.55 mmol) and 6 (1 g, 3.55 mmol) in
CH3CN/DMF (40 mL/10 mL), triethylamine (0.48 mL, 3.6 mmol)
was added while the reaction vessel was cooled on an ice bath.
DCC (0.95 g, 4.6 mmol) was subsequently added and the reaction
mixture was allowed to stir at room temperature for 3 h. The pre-
cipitated DCU was removed by filtration and the solvent from the
filtrate was evaporated. The residue was partitioned between
EtOAc (100 mL) and 1 M HCl (100 mL). The aqueous phase was
extracted with EtOAc (3 Â 100 mL). The combined organic frac-
tions were washed with saturated NaHCO3 (100 mL), brine
(100 mL), and dried (MgSO4). The solvent was removed under
reduced pressure and the residue was purified by flash chromatog-
raphy (2:1 EtOAc:hexane) to afford Boc-Tyr-Tyr-OMe as a white
solid (1.3 g, 3.0 mmol, 84%). 1H NMR (300 MHz, CDCl3): d 7.37
(br, 2 H), 6.91 (d, J = 8.0 Hz, 2H), 6.80 (d, J = 8.0 Hz, 2H), 6.68 (d,
J = 8.0 Hz, 4H), 6.55 (1H, buried amide NH), 5.27 (br, 1H), 4.72
(m, 1H), 4.29 (m, 1H), 3.64 (s, 3H), 2.96–2.89 (m, 4H), 1.40 (s, 9H).
To a solution of Boc-Tyr-Tyr-OMe (500 mg, 1.1 mmol) in THF
(12.5 mL), an aqueous solution (12.5 mL) of LiOHÁH2O (92 mg,
2.2 mmol) was added dropwise while the reaction vessel was
cooled on an ice bath. The resulting reaction mixture was subse-
quently stirred at room temperature for 4 h until all the starting
material was consumed (monitored by TLC). Acetic Acid was added
to adjust pH to 5. The reaction mixture was then extracted by
EtOAc (3 Â 15 mL). The combined organic phase was dried over
MgSO4. Evaporation of the solvent afforded 3 as a white solid,
4.8. Generation and titration of viral stocks
293T cells were grown at 37 °C with 5% CO2, and maintained in
DMEM medium with 4.5 g/L D-glucose and 584 mg/L -Glutamine
(Gibco), supplemented with 10% FBS and 1ÂL penicillin-
streptomycin. Twenty-four hours prior to the transfection,
1.5 Â 106 cells were plated in 10 cm dishes coated with 0.01%
Poly-L-lysine (Sigma-Aldrich). Cells were transfected by adding
6
l
g of replication-deficient plasmid that encodes the genome of
the pseudotyped HIV (pCMV-Gag-Pol), 600 ng of HIV envelope
construct (pSVIIIenv), and 18 L of FuGENE 6 (Promega) diluted
in un-supplemented DMEM. Supernatants of cell cultures were
l