T. Zebardast et al. / Bioorg. Med. Chem. Lett. 19 (2009) 3162–3165
3165
ligands were superimposed on SC-558 in the PDB file 1cx2 after which SC-558
was deleted. The purpose of docking is to search for favourable binding
configuration between the small flexible ligands and the rigid protein. Protein
residues with atoms greater than 7.5 Å from the docking box were removed for
efficiency. Searching is conducted within a specified 3D docking box using
annealing based on the Monte Carlo method and MMFF94 molecular
mechanics force field for 8000 iterations. These docked structures were very
similar to the minimized structures obtained initially. The quality of the
docked structures was evaluated by measuring the intermolecular energy of
the ligand–enzyme assembly.
73.1 (34); 1H NMR(CDCl3): d ppm 1.14–1.88 (m, 10H, cyclohexyl), 2.52 (m, 2H,
CH2S), 2.90 (s, 1H, SO2Me), 2.96 (m, 2H, CH2CO), 3.76 (m, 1H, CHN), 7.72 (d, 2H,
4-methylsulfonylphenyl H2 and H6, J = 8.3 Hz), 8.08 (d, 2H, 4-methylsulfonyl
phenyl H3 and H5, J = 8.3 Hz). Anal. Calcd for C17H23NO3S2: C, 57.76; H, 6.56; N,
3.96. Found: C, 57.42; H, 6.80; N, 4.02. Compound 11d. Yield, 12%, yellow
crystalline powder, mp 152–153 °C; IR (KBr):
m
cmÀ1 1670 (C@O), 1300, 1150
(SO2); MS: m/z (%) 313.2 (M+, 55), 233.1 (25), 206.1 (30), 179.1 (15), 91.0 (100),
77.0 (40); 1H NMR(CDCl3): d ppm 0.99 (t, 3H, CH3), 1.68 (m, 2H, CH2), 2.55–2.90
(m, 4H, COCH2CH2), 3.05 (s, 3H, SO2Me), 3.94 (t, 2H, CH2N), 5.53 (s, 1H, CH),
7.93 (d, 2H, 4-methylsulfonylphenyl H2 and H6, J = 8.5 Hz), 8.40 (d, 2H, 4-
methylsulfonylphenyl H3 and H5, J = 8.5 Hz). Anal. Calcd for C14H19NO3S2: C,
53.65; H, 6.11; N, 4.47. Found: C, 53.42; H, 5.90; N, 4.38. Compound 11e. Yield,
23. Kurumbail, R. G.; Stevens, A. M.; Gierse, J. K.; McDonald, J. J.; Stegeman, R. A.;
Pak, J. Y.; Gildehaus, D.; Miyashiro, J. M.; Penning, T. D.; Seibert, K.; Isakson, P.
C.; Stallings, W. C. Nature 1996, 384, 644.
45%, yellow crystalline powder, mp 159–160 °C; IR (KBr):
m
cmÀ1 1670 (C@O),
24. Analytical data for 10a. Yield, 11%; yellow oil; IR (neat):
m
cmÀ1 1650 (C@O)
1310, 1150 (SO2); MS: m/z (%) 327.2 (M+, 15), 240.2 (40), 196.1 (40), 159.1 (15),
117.1 (100), 91.0 (60), 77.0 (50); 1H NMR(CDCl3): d ppm 0.96 (t, 3H, CH3), 1.35
(m, 2H, CH2), 1.63 (m, 2H, CH2), 2.74–2.89 (m, 4H, COCH2CH2), 3.12 (s, 3H,
SO2Me), 4.20 (t, 2H, CH2N), 5.59 (s, 1H, CH), 7.49 (d, 2H, 4-methyl
sulfonylphenyl H2 and H6, J = 8.3 Hz), 8.01 (d, 2H, 4-methylsulfonylphenyl H3
and H5, J = 8.3 Hz). Anal. Calcd for C15H21NO3S2: C, 55.02; H, 6.46; N, 4.28.
Found: C, 55.32; H, 6.65; N, 4.40. Compound 11f. Yield, 44%, yellow crystalline
cmÀ1; MS: m/z (%) 329.3 (M+, 35), 241.1 (45), 224.2 (60), 192.1 (70), 178.1 (40),
137.0 (70), 91.0 (100), 77.2 (40); 1H NMR (CDCl3): d ppm 2.55 (S, 3H, SCH3),
2.71–3.01 (m, 4H, CH2–CH2), 3.60 (d, 1H, CH2N, J = 15.2 Hz), 4.40 (d, 1H, CH2N,
J = 15.2 Hz), 5.41 (S, 1H, CH), 7.18 (d, 2H, 4-methylthiophenyl H3 and H5,
J = 8.3 Hz), 7.24–7.43 (m, 5H, phenyl), 7.36 (d, 2H, 4-methylthiophenyl H2 and
H6, J = 8.3 Hz). Anal. Calcd for C18H19NOS2: C, 65.62; H, 5.81; N, 4.25. Found: C,
65.32; H, 5.60; N, 4.08. Compound 10b. Yield, 12%; yellow oil; IR (neat):
m
cmÀ1
powder, mp 167–168 °C; IR (KBr): m
cmÀ1 1670 (C@O), 1310, 1160 (SO2); MS:
1650 (C@O); MS: m/z (%) 343.1 (M+, 40), 254.2 (50), 238.9 (90), 163.8 (100),
137.0 (85), 116.9 (85), 105.1 (60), 77.1 (65); 1H NMR (CDCl3): d ppm 2.41 (s, 3H,
SMe), 2.52–2.86 (m, 6H, COCH2CH2 and Phenyl CH2), 2.90 (m, 1H, CH2N), 4.26
(m, 1H, CH2N), 5.06 (s, 1H, CH), 7.02 (d, 2H, 4-methylthiophenyl H3 and H5,
J = 8.1 Hz), 7.10–7.17 (m, 5H, phenyl), 7.22 (d, 2H, 4-methylthiophenyl H2 and
H6, J = 8.1 Hz). Anal. Calcd for C19H21NOS2: C, 66.43; H, 6.16; N, 4.08. Found: C,
m/z (%) 341.1 (M+, 30), 254.2 (60), 238.1 (65), 196.1 (50), 131.1 (25), 117.1
(100), 91.0 (50), 77.0 (30); 1H NMR (CDCl3): d ppm 0.93 (t, 3H, CH3), 1.30 (m,
2H, CH2), 1.62 (m, 2H, CH2), 2.73–2.87 (m, 4H, COCH2CH2), 2.76 (m, 2H, CH2),
3.11 (s, 3H, SO2Me), 4.21 (t, 2H, CH2N), 5.59 (s, 1H, CH), 7.50 (d, 2H, 4-
methylsulfonylphenyl H2 and H6, J = 8.3 Hz), 8.00 (d, 2H, 4-methylsulfonyl
phenyl H3 and H5, J = 8.3 Hz). Anal. Calcd for C16H23NO3S2: C, 56.27; H, 6.79; N,
4.10. Found: C, 56.52; H, 6.99; N, 4.12.
66.79; H, 6.40; N, 4.21. Compound 10c. Yield, 10%; yellow oil; IR (neat):
m
cmÀ1
1650 (C@O); MS: m/z (%) 321.2 (M+, 30), 233.2 (100), 218.2 (30), 190.1 (40),
178.1 (45), 150.0 (90), 137.0 (100), 109.1 (30), 83.1 (30). Anal. Calcd for
C17H23NOS2: C, 63.51; H, 7.21; N, 4.36. Found: C, 63.22; H, 7.60; N, 4.18.
Compound 11a. Yield, 35%; yellow crystalline powder, mp 193–194 °C; IR
25. Analytical data for 12a. Yield, 20%, yellow oil; IR (neat):
m
cmÀ1 1650 (C@N);
m
cmÀ1 1650 (C@N); MS:
MS: m/z (%) 193.1 (M+, 30), 178.1 (15), 136.1 (50), 120.0 (100), 91.1 (30), 77.1
(20). Compound 12b. Yield, 22%, yellow oil; IR (neat):
m/z (%) 207.3 (M+, 25), 192.2 (45), 178.2 (35), 164.0 (45), 150.1 (40), 136.9 (55),
117.2 (100), 91.1 (30). Compound 12c. Yield, 16%, pale yellow powder; IR (KBr):
(KBr):
m
cmÀ1 1670 (C@O), 1320, 1170 (SO2); MS: m/z (%) 361.3 (M+, 10), 289.4
(10), 251.1 (20), 212.3 (10), 165.9 (100), 140.4 (20), 109.1 (100), 83.1 (100); 1H
NMR(DMSO-d6) d ppm 3.27 (s, 3H, SO2Me), 3.05–3.39 (m, 4H, CH2–CH2), 3.91
(d, 1H, CH2N, J = 15.4 Hz), 4.97 (d, 1H, CH2N, J = 15.4 Hz), 6.13 (s, 1H, CH), 7.20–
7.27 (m, 5H, phenyl), 7.71 (d, 2H, 4-methylsulfonylphenyl H2 and H6,
m
cmÀ1 1650 (C@N); MS: m/z (%) 253.2 (M+, 15), 238.1 (90), 224.1 (20), 210.1
(60), 196.0 (50), 182.0 (50), 132.1 (30), 117.0 (100), 91.1 (20), 77.1 (25).
Compound 13a. Yield, 18%, pale yellow powder; IR (KBr):
m
cmÀ1 1300, 1150
(SO2); MS m/z (%): 225.0 (M+, 20), 196.0 (85), 146.1 (40), 117.0 (100), 91.0 (50),
77.0 (25); 1H NMR (CDCl3): d ppm 0.99 (t, 3H, CH3), 1.63 (m, 2H, CH2), 3.05 (s,
3H, SO2Me), 3.42 (t, 2H, CH2N), 7.92 (d, 2H, 4-methylsulfonylphenyl H2 and H6,
J = 8.4 Hz) 7.99 (d, 2H, 4-methylsulfonyl phenyl H3 and H5, J = 8.4 Hz); Anal.
Calcd for C11H15NO2S: C, 58.64; H, 6.71; N, 6.22. Found: C, 58.34; H, 6.91; N,
J = 8.4 Hz), 7.96 (d, 4-methylsulfonylphenyl H3 and H5,
Calcd for C18H19NO3S2: C, 59.81; H, 5.30; N, 3.87. Found: C, 59.62; H, 5.41; N,
4.02. Compound 11b. Yield, 40%; yellow semisolid; IR (KBr):
cmÀ1 1670
J = 8.4 Hz). Anal.
m
(C@O), 1330, 1150 (SO2); MS: m/z (%) 375.1 (M+, 5), 286.2 (15), 196.1 (45),
117.2 (95), 90.0 (100), 77.1 (30); 1H NMR (CDCl3): d ppm 2.68–2.87 (m, 4H,
COCH2CH2), 3.05 (s, 1H, SO2Me), 3.07–3.10 (m, 2H, CH2 Phenyl), 3.17 (m, 1H,
CH2N), 4.23 (m, 1H, CH2N), 5.01 (s, 1H, CH), 7.09 (d, Phenyl H2 and H6,
J = 7.1 Hz), 7.15–7.24 (m, 3H, Phenyl H3–H5), 7.48 (d, 2H, 4-
methylsulfonylphenyl H2 and H6, J = 8.4 Hz) 7.96 (d, 2H, 4-
methylsulfonylphenyl H3 and H5, J = 8.4 Hz). Anal. Calcd for C19H21NO3S2: C,
60.77; H, 5.64; N, 3.73. Found: C, 60.52; H, 5.50; N, 3.88. Compound 11c.Yield,
6.30. Compound 13b. Yield, 17%, pale yellow powder; IR (KBr):
m
cmÀ1 1310,
1150 (SO2); MS m/z (%): 239.1 (M+, 10), 210. 0 (15), 196.0 (35), 137.1 (25),
117.0 (100), 91.0 (60), 77.0 (70). Anal. Calcd for C12H17NO2S: C, 60.22; H, 7.16;
N, 5.85. Found: C, 60.39; H, 7.44; N, 5.98. Compound 13c. Yield, 15%, pale yellow
powder; IR (KBr):
m
cmÀ1 1310, 1150 (SO2); MS m/z (%): 253.1 (M+, 10), 238.1
(85), 210.1 (60), 196.0 (50), 182.0 (50), 132.1 (30), 117.0 (100), 90.1 (75), 77.1
(25); Anal. Calcd for C13H19NO2S: C, 61.63; H, 7.56; N, 5.53. Found: C, 61.88; H,
75%, yellow powder, mp 138–140 °C; IR (KBr):
m
cmÀ1 1660 (C@O), 1300, 1150
7.77; N, 5.60. Satisfactory analysis for C, H,
N was obtained for all the
(SO2); MS: m/z (%) 353.1 (M+, 5), 265.0 (48), 202.0 (25), 155.0 (100), 139.1 (35),
compounds within 0.4% of the theoretical values.