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Article history: To search for effective and selective inhibitors of cholinesterases (AChE and BuChE), a series of poly-
Received 18 January 2020 functionalized Tacrine-derived compounds specifically 2-(alkylthio)-4-aryl-6,7,8,9-tetrahydropyrimido
Accepted 13 February 2020 [4,5-b]quinolin-5-amines were designed an synthesized via Friedlander reaction. The structures of the
Available online 14 February 2020
newly synthesized compounds were confirmed on the basis of their spectral data (1H NMR, 13C NMR) and
elemental analyses (CHNS). Compounds 3a-h were evaluated for their abilities to inhibit AChE and BChE.
Keywords:
The obtained biological results revealed that some synthesized compounds displayed higher anti-
Alzheimer’s disease
cholinesterase activity in comparison to Galantamine. Among them, compound 3d bearing S-ethyl and
2-Alkylthiopyrimidino-Tacrines
Inhibitors of cholinesterases
4-chlorophenyl moieties showed the most potent activity against AChE/BuChE with IC50s values of 4,32
Molecular docking and 15,10 mM, respectively. The anti-AChE activity of 3d was 5-fold more than that of reference drug
DFT calculations Galantamine. Moreover, molecular docking studies were performed for the most active derivatives, 3d
and 3c, in which binding mode between these compounds and the receptors were determined. Density
functional theory (DFT) method at B3LYP/6e311þþG (d,p) level of theory was employed to gain insights
into the molecular structure of the target compounds. Molecular electrostatic potential (MEP) mapping,
reactivity indices such as electronegativity, electrophilic index, softness and hardness as well as frontier
molecular orbitals HOMO-LUMO have been investigated for 3a-3c as representative compounds. In
addition, their antiradical activity has been predicted by computing bond dissociation enthalpies (BDEs).
© 2020 Elsevier B.V. All rights reserved.
https://doi.org/10.1016/j.molstruc.2020.127902
0022-2860/© 2020 Elsevier B.V. All rights reserved.
2 C. Derabli et al. / Journal of Molecular Structure 1209 (2020) 127902
Fig. 1. Drugs for Alzheimer’s disease and the structure of compounds 3a-h described in 2.2.1. Synthesis of 2-(Alkylthio)-4-aryl-6,7,8,9-tetrahydropyrimido
this work. [4,5-b]quinolin-5-amine (3)
In a 100 mL round bottom flask, a mixture of 3-amino-2-
acetylcholinesterase inhibitors (AChEIs) including Donepezil, cyanopyrimidine (1, 1 mmol), aluminum chloride (2 mmol) and
Rivastigmine, and Galantamine [9], able to restore the neuro- cyclohexanone (2, 2 mmol) was added into adequate volume of dry
transmitter acetylcholine levels (Fig. 1). 1,2-dichloroethane (DCE) and stirred at reflux for 24 h (Monitored
Tacrine, the first marketed AChEI which significantly improved by TLC) After completion, water was added and the mixture was
certain functions of recognition, reasoning, perception, attention, basified with 10% sodium hydroxide solution to pH ¼ 8e9. After
decision-making and many others. stirring for 30 min, the precipitate was filtered and washed with
Indeed, it restarted brain chemistry by restoring neurotrans- water. Purification by recrystallization in ethyl acetate afforded the
mission at the synapses by protecting acetylcholine and butyr- title compounds.
ylcholine neurotransmitters. Despite the effectiveness of the
treatment, the patients who took it quickly developed rather 2.2.2. Spectral characterization
serious side effects: hepatotoxicity, heart problems, neuropsychic 4-(4-Chlorophenyl)-2-(methylthio)-6,7,8,9-tetrahydropyrimido
disorders, digestive disorders, etc [10,11], and since then many re- [4,5-b]quinolin-5-amine (3a).
searchers have been interested in the development of Tacrine an- Compound 3a was obtained as a yellow solid (41%). M.p:
alogues by minimizing adverse reactions as much as possible 251e254 C; 1H NMR (400 MHz, CDCl3) d (ppm) 7.44 (m, 4H), 4.49
[12e17]. (br s, 2H, NH2), 2.97 (t, J ¼ 6.0 Hz, 2H), 2.64 (s, 3H, SCH3), 2.32 (t,
In this context, we have recently reported the synthesis and J ¼ 6.0 Hz, 2H), 1.86e1.81 (m, 4H).13C NMR (100 MHz, CDCl3)
pharmacological studies of a series of readily available Tacrine- d (ppm) 170.3, 165.8, 165.6, 158.3, 149.1, 137.4, 136.5, 130.0, 129.8,
pyranopyrazole [18] and alkylbis(4-amino-5-cyanopyrimidine) 129.6, 129.4, 111.9, 103.7, 34.5, 23.5, 22.4, 14.4. Anal. calcd for
derivatives [19], as promising agents for AD therapy. In our efforts C18H17ClN4S: C, 60.58; H, 4.80; N, 15.70; S, 8.99; Found: C, 60.91; H,
to contribute to the development of new compounds that may be 4.67; N, 15.35, S, 9.32.
useful in the treatment of AD, we are focusing on the synthesis of 4-(4-Methoxyphenyl)-2-(methylthio)-6,7,8,9-
new Tacrine analogues which result from exchanging the benzene tetrahydropyrimido [4,5-b]quinolin-5-amine (3b):
ring (A) with a potentially active pharmacophore: 2- Compound 3b was obtained as a yellow solid (58%). M.p:
alkylthiopyrimidine. In fact, pyrimidine derivatives and their 176e178 C. 1H NMR (400 MHz, CDCl3) d(ppm): 7.43 (dd, J ¼ 6.8,
analog exhibit a variety of pharmacological activities, including 2.4 Hz, 2H), 6.96 (dd, J ¼ 6.8, 2.0 Hz, 2H), 4.58 (br s, 2H, NH2), 3.81 (s,
antitumoral properties [20]. They can be used as anticancer [21], 3H, OeCH3), 2.97 (t, J ¼ 6.0 Hz, 2H), 2.64 (s, 3H, SeCH3), 2.32 (t,
antimicrobial [22], antitubercular agents [23] and so forth. As our J ¼ 6.4 Hz, 2H), 1.86e1.81 (m, 4H).13C NMR (100 MHz, CDCl3):
continuous interest in the synthesis of the biologically important d (ppm): 170.3, 166.6, 165.4, 161.1, 158.4, 149.5, 132.6, 131.2, 130.2,
heterocycles, herein we describe the synthesis of a novel series of 114.9, 111.6, 103.8, 55.5, 34.4, 26.8, 23.5, 22.5, 22.4, 14.4. Anal. calcd
highly functionalized 2-(alkylthio)-4-aryl-6,7,8,9- for C19H20N4OS: C, 64.75; H, 5.72; N, 15.90; S, 9.10; Found: C, 64.35;
tetrahydropyrimido [4,5-b]quinolin-5-amines as cholinesterase H, 5.21; N, 15.45, S, 9.47.
inhibitors. In addition, molecular docking analysis was also per- 2-(Methylthio)-4-(3-nitrophenyl)-6,7,8,9-tetrahydropyrimido
formed to disclose the binding interaction template of the most [4,5-b]quinolin-5-amine (3c):
active inhibitors to the amino acid residues composing active site of Compound 3c was obtained as a orange brown solid (55%). M.p:
the AChE and BChE enzymes and the findings are presented below. 210e216 C. 1H NMR (400 MHz, CDCl3) d (ppm): 8.39 (s, 1H),
Furthermore, optimized molecular geometry, frontier molecular 8.32(dd, J ¼ 8.0, 1.6 Hz, 1H), 7.88 (dd, J ¼ 7.6, 1.2 Hz, 1H), 7.67 (t,
orbitals HOMO-LUMO, molecular electrostatic potential (MEP) J ¼ 8.0 Hz, 1H), 4.38 (br s, 2H, NH2), 3.0 (t, J ¼ 5.6 Hz, 2H), 2.63 (s,
mapping and reactivity indices (electronegativity, electrophilic in- 3H), 2.36 (t, J ¼ 6.0 Hz, 2H), 1.87e1.82 (m, 4H). 13C NMR (100 MHz,
dex, softness and hardness) have been investigated for 3a-3c as CDCl3): d (ppm): 170.5166.5, 163.9, 158.3, 148.6, 148.4, 140.5, 134.8,
representative compounds using DFT/B3LYP method. At the same 130.2, 124.9, 124.1, 112.4, 103.6, 34.5, 23.5, 22.3, 14.5. Anal. calcd for
level of theory, the antiradical properties of 3a-3c have been also C18H17N5O2S: C, 58.84; H, 4.66; N, 19.06; S, 8.73; Found: C, 58.59; H,
examined by computing bond dissociation enthalpies (BDEs). 5.03; N, 18.81, S, 8.95.
4-(4-Chlorophenyl)-2-(ethylthio)-6,7,8,9-tetrahydropyrimido
2. Experimental section [4,5-b]quinolin-5-amine (3d).
Compound 3d was obtained as an orange brown (57%). M.p
2.1. Materials and equipments 216e219 C.1H NMR (400 MHz, CDCl3) d (ppm) 7.44 (m, 4H), 4.47
(br s, 2H, NH2), 3.28 (q, J ¼ 7.2 Hz, 2H), 2.97 (t, J ¼ 6.0 Hz, 2H), 2.32 (t,
All chemicals were purchased from the Sigma-Aldrich and used J ¼ 6.0 Hz, 2H), 1.85e1.81 (m, 4H), 1.36 (t, J ¼ 7.2 Hz, 3H).13C NMR
C. Derabli et al. / Journal of Molecular Structure 1209 (2020) 127902 3
(100 MHz, CDCl3) d (ppm) 169.9, 165.8, 165.6, 158.3, 149.0, 137.5, the reaction of DTNB with thiocholine, released by the enzymatic
136.5, 130.0, 129.4, 111.9, 103.7, 34.5, 25.3, 23.5, 22.4, 22.3, 14.4. Anal. hydrolysis of acetylthiocholine iodide or butyrylthiocholine chlo-
calcd for C19H19ClN4S: C, 61.53; H, 5.16; N, 15.11; S, 8.65; Found: C, ride, respectively, at a wavelength of 412 nm, every 5 min for
61.87; H, 5.38; N, 14.85, S, 8.45. 15 min, utilizing a 96-well microplate reader (PerkinElmer Multi-
2-(Butylthio)-4-(4-chlorophenyl)-6,7,8,9-tetrahydropyrimido mode Plate Reader EnSpire, USA) in triplicate experiments. Gal-
[4,5-b]quinolin-5-amine (3e): anthamine was used as reference compound. The results were
Compound 3e was obtained as a yellow solid (58%). M.p: given as 50% inhibition concentration (IC50) and the percentage of
230e232 C. 1H NMR (400 MHz, CDCl3) d (ppm): 7.53 (m, 4H), 4.56 inhibition of AChE or BChE was determined by comparison of re-
(br s, 2H, NH2), 3.39 (t, J ¼ 7.2 Hz, 2H), 3.06 (t, J ¼ 6.4 Hz, 2H), 2.41 (t, action rates of samples relative to blank sample (methanol in
J ¼ 6.0 Hz, 2H), 1.95e1.90 (m, 4H), 1.77 (qt, J ¼ 7.2 Hz, 2H), 1.52 (qt, phosphate buffer, pH 8) using the formula:
J ¼ 7.6 Hz, 2H), 0.96 (t, J ¼ 7.2 Hz, 3H). 13C NMR (100 MHz, CDCl3):
d (ppm): 170.2, 165.8, 165.5, 158.3, 149.0, 137.5, 136.5, 130.1, 129.4, ES
Inhibition of AChE or BChE ð%Þ ¼ 100
111.8, 103.7, 34.5, 30.9, 23.5, 22.4, 22.3, 22.1, 13.8. Anal. calcd for E
C21H23ClN4S : C, 63.22; H, 5.81; N, 14.04; S, 8.04; Found: C, 63.49; H,
Where E is the activity of enzyme without test sample, and S is the
6.09; N, 14.39, S, 7.89.
activity of enzyme with test sample.
2-(Butylthio)-4-(4-methoxyphenyl)-6,7,8,9-tetrahydropyrimido
[4,5-b]quinolin-5-amine (3f):
Compound 3f was obtained as a yellow solid (39%). M.p: 2.4. Molecular modeling
188e190 C. 1H NMR (400 MHz, CDCl3) d (ppm): 7.53 (dd, J ¼ 6.8,
2.0 Hz, 2H), 7.05 (dd, J ¼ 6.8, 2.0 Hz, 2H), 4.81 (br s, 2H, NH2), 3.90 (s, AutodockVina 1.1.1 [25] was the software of choice to generate
3H, OeCH3), 3.37 (t, J ¼ 7.2 Hz, 2H), 3.07 (t, J ¼ 6.0 Hz, 2H), 2.43 (t, the binding modes of the re-docked ligands and the tested com-
J ¼ 6.0 Hz, 2H), 1.95e1.92 (m, 4H),1.76 (qt, J ¼ 7.2 Hz, 2H), 1.50 (qt, pounds.The 2D structure was illustrated by ChemBioDraw Ultra
J ¼ 7.2 Hz, 2H), 0.95 (t, J ¼ 7.2 Hz, 3H).13C NMR (100 MHz, CDCl3): 14.0. ChemBio3D Ultra 14.0from the same package was the tool of
d (ppm): 170.3, 166.6, 164.9, 161.2, 158.2, 149.7, 131.1, 130.3, 114.6, obtaining the 3D configuration. The most stable conformers were
111.6, 104.5, 103.8, 55.5, 34.2, 30.9, 30.8, 23.5, 22.4, 22.3, 22.1, 19.7, proposed by energy minimization algorithm MOPAC which oper-
13.8. Anal. calcd for C22H26N4OS: C, 66.97; H, 6.64; N, 14.20; S, 8.13; ates inside VEGA ZZ 3.1.1.42enviroment [26]. All the crystal struc-
Found: C, 66.93; H, 6.57; N, 14.20, S, 7.40. tures were downloaded in PDB format from the Protein Data Bank
2-(Butylthio)-4-(3-nitrophenyl)-6,7,8,9-tetrahydropyrimido web site [27]. The proteins were prepared for docking by deletion of
[4,5-b]quinolin-5-amine (3g). the unwanted molecules and the water using VEGA ZZ 3.1.1.42.The
Compound 3g was obtained as a yellow solid (62%). M.p: energy minimization of proteins were performed by YASARA server
>260 C.1H NMR (400 MHz, CDCl3) d (ppm) 8.48 (d, J ¼ 2.0 Hz, 1H), [28]. The residues of the binding sites in the active site of acetyl-
8.41 (dd, J ¼ 8.4, 1.2 Hz, 1H), 7.96 (d, J ¼ 7.6 Hz 1H), 7.75 (t, J ¼ 6.0 Hz, cholinesterase were identified as Trp86, Tyr124, Ser203, Glu202,
1H), 4.45 (br s, 2H, NH2), 3.39 (t, J ¼ 7.2 Hz, 2H), 3.08 (t, J ¼ 6.0 Hz, Tyr337, Phe338, His447, and Tyr449.The backbone of the binding
2H), 2.44 (t, J ¼ 6.0 Hz, 2H), 1.95e1.88 (m, 4H), 1.68 (qt, J ¼ 7.2 Hz, cavity of butyrylcholinesterase has the following flexible amino
2H), 1.27 (qt, J ¼ 7.2 Hz, 2H), 0.99 (t, J ¼ 7.2 Hz, 3H). 13C NMR acids, Asn68, Ile69, Asp70, Trp82, Gln119, Thr120, Ser198, Trp231,
(400 MHz, CDCl3) d (ppm) 170.3, 166.4, 163.9, 158.3, 148.5, 148.3, leu286, Ser287, Val288, phe329, Tyr332, phe398, Trp430, Met437,
140.5, 134.9, 130.1, 124.8, 124.1, 112.3, 103.6, 34.5, 30.8, 23.5, 22.3, His438 and Tyr440. The flexible residues were allowed to move
14.2. Anal.calcd for C212H23N5O2S: C, 61.59; H, 5.66; N, 17.10; S, 7.83; freely during the processed flexible docking. The docking grid was
Found: C, 61.87; H, 5.92; N, 17.85, S, 7.54. sized to enclose the co-crystallized molecule and the flexible resi-
4-(4-Chlorophenyl)-2-(octylthio)-6,7,8,9-tetrahydropyrimido dues. For acetylcholinesterase (4ey6) [29] the center of the grid box
[4,5-b]quinolin-5-amine (3h): was: X ¼ 8.2, Y ¼ 61.5, Z ¼ 23.8 and the size was 17 *17 *17 Å.
Compound 3h was obtained as a yellow solid (51%). M.p: Crystal structure AchE (4bdt) [30] has the following spatial center
164e167 C. 1H NMR (400 MHz, CDCl3) d(ppm7.44 (m, 4H), 4.46 (br of the docking box X ¼ 2.22, Y ¼ 34.6, Z ¼ 52.3 and the size was
s, 2H, NH2), 3.29 (t, J ¼ 7.2 Hz, 2H), 2.97 (t, J ¼ 6.0 Hz, 2H),2.32 (t, 17*20*18 Å. For butyrylcholinesterase (5dyw) [31] the grid box size
J ¼ 6.0 Hz, 2H), 1.86e1.81 (m, 4H), 1.68 (qt, J ¼ 7.6 Hz, 2H), 1.40 (qt, was 28 *22*22 Å and the center of box: X ¼ 137.1 Y ¼ 114.3, Z ¼ 39.9.
J ¼ 7.6 Hz, 2H),1.24e1.18 (m, 8H), 0.80 (t, J ¼ 6.8 Hz, 3H).13C NMR Pymol software was the visualization tool for the ligands/protein
(400 MHz, CDCl3): d(ppm): 170.3, 165.8, 165.5, 158.3, 149.0, 137.5, complex [32].
136.5, 130.1, 129.4, 111.8, 103.8, 34.5, 31.8, 31.1, 29.2, 29.0, 28.8, 23.5,
22.7, 22.4, 22.3, 14.1. Anal. calcd for C25H31ClN4S: C, 65.98; H, 6.87; 2.5. Computational details
N, 12.31; S, 7.05; Found: C, 66.23; H, 6.54; N, 12.70, S, 6.73.
Density functional theory (DFT) calculations have been carried
2.3. Method for cholinesterase activity assay out using Gaussian09software [33]. The B3LYP functional [34,35]
and the 6e311þþG(d,p) basis set have been used for all calcula-
Acetylcholinesterase (AChE) and butyrylcholinesterase (BChE) tions. All the ground states were confirmed by vibrational fre-
inhibitory activity was measured, by the spectrophotometric quency analysis (no imaginary frequency). Electronegativity,
method developed by Ellman, G.L., et al. [24] Briefly, 150 ml of chemical softness, chemical hardness and electrophilic indexwere
100 mM sodium phosphate buffer (pH 8.0), 10 ml of sample solution calculated based on HOMO and LUMO energiesas reported in the
dissolved in methanol at different concentrations and 20 ml AChE literature [36e40]. Thebond dissociation enthalpy (BDE) have been
(5.32 10-3 U) or BChE (6.85 10-3U) solution were mixed and calculated as reported in our previous works [41,42].
incubated for 15 min at 25 C, and 10 ml of 0.5 mM DTNB[5,50 -
dithio-bis(2-nitrobenzoic) acid] were added. The reaction was then 3. Results and discussion
initiated by the addition of 10 ml of acetylthiocholine iodide
(0.71 mM) or butyrylthiocholine chloride (0.2 mM). The hydrolysis 3.1. Chemistry
of these substrates were monitored spectrophotometrically by the
formation of yellow 5-thio-2-nitrobenzoate anion, as the result of The target compounds 3a-h were synthesized via Friedlander
4 C. Derabli et al. / Journal of Molecular Structure 1209 (2020) 127902
nitriles in the presence of potassium carbonate afforded the Compound IC50 (mM) ± SD/% inhibitiona Selectivity index
corresponding alkylthiopyrimidine derivatives 1a-h, as previously AChE BuChE AChEc BuChEd
investigated in our laboratory [43]. Condensation of the starting
3a 8,76 ± 0,22 19,97 ± 0,86 2,28 0,44
pyrimidines 1a-h with cyclohexanone 2 in the presence of AlCl3 in
3b 5,85 ± 0.28 6,78 ± 0,51 1,16 0,86
dry 1,2 dichloromethane gave eight new compounds 3a-h, with 3c 4,68 ± 0,73 21,71 ± 0,41 4,64 0,21
moderate to good yields (39e62%). These compounds were purified 3d 4,32 ± 0,87 15,10 ± 0,19 3,49 0,29
by recrystallization in ethyl acetate and characterized by 1H NMR, 3e 13,16 ± 0,14 115,82 ± 5,95 8,80 0,11
13 3f 4,94 ± 0,42 2,74 ± 0,74 0,55 1,80
C NMR, and elemental analyses (CHNS).
3g 69,19 ± 4,99 121,24 ± 1,40 1,75 0,57
3h 48,94 ± 4,05 151,38 ± 22,2 3,09 0,32
3.2. Biological evaluation Galantamineb 21,81 ± 1,15 40,72 ± 2,85 1,87 0,53
a
IC50 values represent the means ± SD of three parallel measurements (p < 0.05).
The inhibitory proprieties of target compounds 3a-h were per- b
Reference compound.
formed by the spectroscopic method described by Ellman’s [24] c
Selectivity for AChE is defined as IC50 BuChE (mM)/IC50 AChE (mM).
using Galantamine as the standard. Most of the compounds showed
d
Selectivity for BuChE is defined as IC50 AChE (mM)/IC50 BuChE (mM).
the benzene ring of the pyrimidine scaffold and Tyrosine 337 and result in preserving the hydrophobic interaction. The hydrogen
the fused alicyclic ring with the tryptophan 86 were maintained bonding interaction between the sulfite moiety and Thr120 was
while the hydrogen bond interaction was shifted from Ser203 to identical in both crystallized and re-docked models. One binding
Trp86 (Fig. 2 b). mode from the docking of the compounds under investigation was
The same docking parameter was applied for the assayed proposed. This pose was selected as it afforded the maximum
compound. Rigid and flexible dockings were performed where the number of hydrogen bonds between the most active inhibitor 3f
flexible docking introduced more reliable results than the rigid and and the protein. On the other hand it was the most frequent binding
more compatible with biological study. The orientation of Tacrine mode between all poses generated by the automated flexible
core of all compounds (with exception of 3c and 3g) was found to docking. In the selected binding mode the phenyl ring directed
be well oriented to give a good hydrophobic field toward Trp86 in toward the outside of the binding cavity and pi-interaction with the
addition to hydrogen bonds with Tyr124 (Fig. 3 c). phenyl ring of Tyr332 represented a possibility. Another stabiliza-
The presence of the nitro group on 3c and 3g may lead to an tion could be provided by hydrogen bond interaction with Asp70.
inverse orientation in which the nitro group made hydrogen bonds The hydrophobic interaction of the compounds with the protein
with Gly121. Trp86 was parallel in this case to the phenyl ring seemed to be more limited in comparison with the native ligand
which offered a reduced surface area for the hydrophobic interac- which may describe the high IC50 of most of them obtained from
tion which might be compensated by the hydrogen bond interac- the in vitro assay.
tion from the nitro group and pi-interaction. This effect is suggested
to potentiate the efficacy of 3c while it might have a negative 3.4. Theoretical investigations
impact on 3g. The decrease in the inhibitory action could be
attributed to the hindrance between the long side chain of the After having successfully synthesized and evaluated in vitro the
compound and the inner wall of the pocket. This Impact could be biological activity of the target Tacrine analogues, we next envis-
seen also in case of 3h which showed the lowest affinity in both aged to gain insights about the reactive nature and reactivity in-
rigid and flexible models. The length of side chain seemed to have a sights of tacrines 3a-3c, as representative compounds, by using
key role in the interaction which may be repulsive in case of 3g and density functional theory (DFT) calculations. Optimized molecular
3h while might be an additive hydrophobic site in case of 3f (Fig. 3 geometries obtained by theoretical methods are useful to explain
d). the three-dimensional structures of the investigated compounds.
The pocket of BuChE (Pdb code: 5dyw) [31] is larger than that of The molecular structures of 3a, 3b and 3c have been optimized at
AChE, and the docking was a challenge. The rigid docking modeling B3LYP/6-311Gþþ(d,p) level of theory. The obtained structures are
provided results not correlated to the biological studies. The flex- shown in Fig. 5. As can be seen, the structures of 3a-3c are non-
ible docking still the better choice in this case. The binding affinity planar due to the presence of the NH2 group of the pyridine ring.
provided by flexible docking was more reasonable in a relative to The substituted benzenes are inclined by 53.67, 46.45 and 50.85
the biological study comparing to the rigid one. The interesting for 3a, 3b and 3c, respectively. The fused pyridine and pyrimidine
result obtained from the calibration of the docking tool was satis- rings adopt quasi-planar geometries for all the studied compounds.
factory to consider the docking results as consistent. Fig. 4. Reactivity indices such as electronegativity, electrophilic index,
The native ligand oriented in a similar binding mode displayed softness and hardness are excellent tools that characterize the
by the non-minimized crystal structure of the enzyme. Some reactivity of the target compounds [44,45]. Electronegativity is a
displacement in the position of Trp82 could be noticed which measure of the tendency to attract electrons in a chemical bond.
possibly occurred to maintain the hydrophobic and the pi-inter- Electrophilicity index is related to the energy lowering associated
action toward the lateral benzene ring. Similarly Tyr440 was moved with a maximum amount of electron flow between a donor and an
in to adjust the new position of the same benzene ring which could acceptor [39,46]. The chemical softness and hardness are measures
a b
Fig. 2. The molecular docking study of AChE a)The re-docking result of the native ligand (inside the blue mesh) with crystallized Galantamine (salmon color) is showing the near
positioning between the generated orientation of the flexible amino acids residues (blue sticks) and the crystallized one (salmon sticks) of AchE (Pdb code: 4ey6) b) in silico
proposed binding mode of huprine w and with the free rotated amino acids of the gorge relatively to the crystallized structure (salmon color) of AchE pdb code: 4bdt.
6 C. Derabli et al. / Journal of Molecular Structure 1209 (2020) 127902
c d
Fig. 3. The molecular docking study of AChE c) 3c binding mode (blue) within the flexible amino acid residues of the binding site (salmon) d) 3d (blue) interaction with the flexible
amino acids backbone of the pocket (salmon color).
Fig. 4. Docking results of BuChE (5dyw) a) Re-docked native ligand (blue) and the flexible amino acid in comparison with the original orientation (salmon color). b) Docking result
of 3f showing the interaction with the movable amino acid residues of the active site (salmon stick).
Table 2
Reactivity indices of 3a-3c obtained at B3LYP/6e311þþG(d,p)level of theory.
Reactivity indices 3a 3b 3c
Fig. 5. Optimized geometries of 3a-3c obtained at B3LYP/6-311Gþþ(d,p) level of act as electron donor rather than electron acceptor. In terms of
theory.
electrophilic index, the least reactive compound as electron donor
is 3c, whereas the other compounds have a comparable reactivity.
of resistance to charge transfer. The reactivity indices of compounds Molecular electrostatic potential (MEP) mapping is a very useful
3a-3c were calculated in the gas-phase and are given in Table 2. approach to explore the reactivity of the investigated compounds.
An examination of the obtained results reveals that 3a-3c have MEP mapping results for 3a, 3b and 3c are illustrated in Fig. 6. The
comparable values of electronegativity, softness and hardness in nucleophilic and electrophilic sites are expressed in term of
the range of 3.98e4.91, 1.31e1.97 and 0.25e0.38, respectively. 3c different color codes; a deep red color indicates an electron-rich
has the highest electrophilicity index value (9.24), whereas 3a and site, whereas deep blue indicates an electron-deficient site. As
3b have comparable values (4.04 and 4.72, respectively).These ob- shown in Fig. 6, the most electron-rich sites of 3a-3c are located
servations clearly shown that all the studied compounds prefer to around the two adjacent nitrogen atoms of the pyridine and py-
rimidine rings, where as the most electron-deficient sites are one
C. Derabli et al. / Journal of Molecular Structure 1209 (2020) 127902 7
4. Conclusion
Acknowledgments
Fig. 6. Lowest unoccupied molecular orbital (a), highest occupied molecular orbital (b)
and molecular electrostatic potential (c) of 3a-3c calculated at B3LYP/6-311Gþþ(d,p) We thank MESRS (Ministe re de l’Enseignement Supe rieur et de
level of theory. la Recherche Scientifique) and DGRST (Direction Ge ne
rale de la
Recherche Scientifique et Technologique), Algeria for financial
support. H.B. thanks the HPC resources of UCI (Unite de Calcul
the NH2 groups. These results suggest that these sites are the res Mentouri Constantine 1 University for the used
Intesif) of the Fre
preferred sites for electrophilic and nucleophilic attacks, computational resources.
respectively.
Highest occupied molecular orbital (HOMO) and lowest unoc-
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