2
M. T. Gabr et al.
J Enzyme Inhib Med Chem, Early Online: 1–6
Docking protocol
Yield 58%, m.p. 162–163 ꢀC. IR spectrum (KBr, v, cmꢁ1):
3255, 3210 (NH2), 3115 (2NH), 1655 (C ¼ O). 1H NMR
spectrum: (Acetone-d6, ꢀ ppm): 2.96 (s, 2H, NH2), 4.45 (s, 2H,
CH2), 6.96 (s, 2H, 2NH), 7.24 (d, 1H, Ar–H), 7.37 (d, 1H, Ar–H),
7.71 (s, 1H, Ar–H). HRMS: m/z (ESI) Calcd for C9H8ClN4OSꢁ,
[M–H]ꢁ: 255.0186; found: 255.0189.
Docking simulation was done by SwissDock software15. All the
conformers were virtually docked at the defined cavity of the
receptor. The number of placements was fixed at 30 placements
and the rotation angle was fixed at 30ꢀ. By rotation angle, the
ligand gets rotated for different poses. By placements, the method
will check all the 30 possible placements into the active site
pocket and results out few best placements out of 30. For each
ligand, all the conformers with their best placements and their
Synthesis of ethyl 1-[2-((6-chlorobenzothiazol-2-yl)amino)-2-
oxoethyl]-5-hydroxy-1H-pyrazole-4-carboxylate (4)
dock score will be saved in output folder. The method also A mixture of compound 3 (0.257 g, 0.001 mol), diethyl ethox-
highlights the best placement for the best conformer of one ymethylenemalonate (0.216 g, 0.001 mol) and anhydrous potas-
particular ligand which is having best (minimum) dock score. sium carbonate (0.207 g, 0.0015 mol) in acetonitrile (15 mL) was
After docking simulation, the best docked conformer of com- heated at reflux temperature for 12 h. After cooling, the solution
pound 4 and receptor was merged and its complex was then was acidified with dilute hydrochloric acid and the precipitated
˚
energetically optimized by defining the radius of 10 A measured dark yellow solid was collected by filtration, dried and crystal-
from the docked ligand. Stepwise energy optimization was lized from ethanol.
done by first hydrogen, second side chains and finally the
backbone of receptor.
Yield 45%, m.p. 195–197 ꢀC. IR spectrum (KBr, v, cmꢁ1):
3260 (OH), 3150 (NH), 1710 (COOC2H5), 1685 (C ¼ O). 1H
NMR spectrum: (CDCl3, ꢀ ppm): 1.30 (t, 3H, CH2CH3), 3.55
(s, 2H, CH2), 4.05–4.35 (q, 2H, CH2CH3), 7.20–7.80 (m, 4H,
Ar–H, pyrazole–H), 10.40 (s, 1H, OH), 11.50 (s, 1H, NH). 13C
NMR: spectrum: (CDCl3, ꢀ ppm): 14.6, 56.9, 61.0, 95.8, 121.0,
125.8, 128.0, 132.0, 135.5, 145.8, 157.2, 161.4, 167.2. HRMS:
m/z (ESI) Calcd for C15H12ClN4O4Sꢁ, [M–H]ꢁ: 379.0346; found:
379.0352. CHN Analysis for C15H13ClN4O4S: Found
(Calculated): C: 47.56 (47.31), H: 3.25 (3.44), N: 14.47 (14.71).
Synthesis
Melting points (ꢀC) were recorded on Fisher–Johns melting point
apparatus and are uncorrected. The infrared spectra were recorded
using Nicolet Magna-IR Fourier-Transform 560 Spectrometer
(v in cmꢁ1) at the Department of Chemistry, Georgia State
University, USA. Nuclear magnetic resonance (1H and 13C NMR)
spectra were obtained on Bruker Avance 400 MHz spectrometer
using CDCl3, and Acetone-d6 as solvents at the Department of
Chemistry, Georgia State University, USA. The chemical shifts
are expressed in d ppm using tetramethylsilane (TMS) as internal
reference. Mass spectra were recorded on nano LC-Q-TOF micro
(Waters Micromass) spectrometer in negative ion mode as
necessary at the Department of Chemistry, Georgia State
University, USA. Reaction times were monitored using TLC
plates, Silica gel 60 F254 pre-coated (E. Merck) and the spots
were visualized by UV(366 nm). Chloroform:methanol (9:1) was
adopted as an elution solvent. 2-Amino-6-chlorobenzothiazole (1)
was purchased from Richest Co., China.
A general approach to synthesize compound 4 is outlined in
Scheme 1, started with the synthesis of 2-chloro-N-(6-chloroben-
zothiazol-2-yl)acetamide (2). Chloroacetyl chloride (1.13 g,
0.01 mol) was added slowly with stirring to a mixture of
2-amino-6-chlorobenzothiazole (1) (1.85 g, 0.01 mol) and triethy-
lamine (0.1 mL) in carbon tetrachloride (20 mL). The mixture
was heated at reflux temprature for 12 h, then the solvent was
evaporated under reduced pressure. The remaining solid was
crystallized from ethanol. Yield 61%, m.p. 140–142 ꢀC16.
Tyrosine kinase assay
Initial screening over 11 kinases
The tested compound 4 was dissolved in DMSO and tested at a
single concentration of 100 mM with a final DMSO concentration
of 2%. Compound 4 was then added to reaction plates containing
the particular kinase in assay buffer [20 mM 4-(2-hydroxyethyl)-
1-piperazineethanesulfonic acid (HEPES), pH 7.5, 10 mM MgCl2,
1 mM ethylene glycol tetra-acetic acid (EGTA), 0.02% Brij35,
0.02 mg/mL bovine serum albumin (BSA), 0.1 mM Na3VO4,
2 mM dithiothreitol (DTT), 1% DMSO]. Reactions were initiated
by the addition of a mixture of ATP (Sigma, St. Louis, MO) and
33P ATP (Perkin Elmer, Waltham, MA) to a final concentration of
10 mM. Reactions were carried out at room temperature for 2 h,
followed by spotting of the reactions onto P81 ion exchange filter
paper (Whatman Inc., Piscataway, NJ). Unbound phosphate was
removed by extensive washing of filters in 0.75% phosphoric
acid17. Kinase activity data was reported as the percentage
remaining enzyme activity after subtraction of enzyme inhibitory
activity of DMSO control reactions as background (Table 1).
Synthesis of N-(6-chlorobenzothiazol-2-yl)-2-hydrazinylacetamide
(3)
Testing against EGFR kinase
A mixture of compound 2 (2.6 g, 0.01 mol) and hydrazine hydrate
99% (5 g, 0.1 mol) in ethanol (30 mL) was heated at reflux
temprature for 14 h. The reaction mixture was cooled and the
precipitated solid was collected by filtration, washed with water,
dried and crystallized from ethanol.
Compound 4 was tested in a 10-dose IC50 mode with threefold
serial dilutions starting at 20 mM. Staurosporine was used as a
control compound in a 10-dose IC50 mode with fivefold serial
dilutions starting at 20 mM. Reaction was carried out at 10 mM
ATP concentration17. IC50 value of 4 was calculated.
COOC2H5
HO
O
O
O
N
N
S
N
S
N
NH NH2
N
Cl
iii
i
ii
NH2
N
N
H
N
H
N
H
S
S
Cl
Cl
Cl
Cl
1
2
3
4
Scheme 1. Reaction conditions and reagents: (i) chloroacetyl chloride, CCl4, 12 h, 61%; (ii) hydrazine hydrate, C2H5OH, reflux, 14h, 58%; (iii) diethyl
ethoxymethylenemalonate, anhydrous K2CO3, CH3CN, reflux, 12h, 45%.