Maolin Sun1, Qile Xu1, Jingwen Xu2, Yue Wu1, Yueting Wang1, Daiying Zuo2, Qi Guan1, Kai Bao1,3, Jian Wang1, Yingliang Wu2, Weige Zhang1. 1. Key Laboratory of Structure-Based Drug Design and Discovery, Ministry of Education, Shenyang Pharmaceutical University, Shenyang, China. 2. Department of Pharmacology, Shenyang Pharmaceutical University, Shenyang, China. 3. Gordon Center for Medical Imaging, Division of Nuclear Medicine and Molecular Imaging, Department of Radiology, Massachusetts General Hospital and Harvard Medical School, Boston, Massachusetts, United States of America.
Abstract
A series of N,4-diaryl-1,3-thiazole-2-amines containing three aromatic rings with an amino linker were designed and synthesized as tubulin inhibitors and evaluated for their antiproliferative activity in three human cancer cell lines. Most of the target compounds displayed moderate antiproliferative activity, and N-(2,4-dimethoxyphenyl)-4-(4-methoxyphenyl)-1,3-thiazol-2-amine (10s) was determined to be the most potent compound. Tubulin polymerization and immunostaining experiments revealed that 10s potently inhibited tubulin polymerization and disrupted tubulin microtubule dynamics in a manner similar to CA-4. Moreover, 10s effectively induced SGC-7901 cell cycle arrest at the G2/M phase in both concentration- and time-dependent manners. The molecular docking results revealed that 10s could bind to the colchicine binding site of tubulin.
A series of N,4-diaryl-1,3-thiazole-2-amines containing three aromatic rings with an amino linker were designed and synthesized as tubulin inhibitors and evaluated for their antiproliferative activity in three humancancer cell lines. Most of the target compounds displayed moderate antiproliferative activity, and N-(2,4-dimethoxyphenyl)-4-(4-methoxyphenyl)-1,3-thiazol-2-amine (10s) was determined to be the most potent compound. Tubulin polymerization and immunostaining experiments revealed that 10s potently inhibited tubulin polymerization and disrupted tubulin microtubule dynamics in a manner similar to CA-4. Moreover, 10s effectively induced SGC-7901 cell cycle arrest at the G2/M phase in both concentration- and time-dependent manners. The molecular docking results revealed that 10s could bind to the colchicine binding site of tubulin.
Microtubules are key structural components in eukaryotic cells and play a crucial role in a number of cellular functions, including regulation of motility, cell division, organelle transport, maintenance of cell morphology and signal transduction [1,2]. Tubulin-binding drugs disrupt microtubule/tubulin dynamics by binding to distinct sites such as taxol, vinca alkaloid and colchicine binding sites and arrest cells during mitosis, leading to cell death [3-5]. In contrast to macromolecular paclitaxel and vinblastine, most novel colchicine binding site inhibitors (CBSIs) have high potency, relatively simple and diverse chemical structures for optimization, and selective toxicity toward tumor vasculature [6]. Given the success of paclitaxel and vinblastine, research efforts have been focused on developing CBSIs for cancer treatment, and a number of effective CBSIs are currently being investigated in clinical studies [7]. Some representative CBSIs include the natural products colchicine (1), combretastatin A-4 (CA-4, 2) and nocodazole (3), shown in Fig 1A [8-12]. Phenstatin (4) is a CA-4 analog in which the double bond of CA-4 is replaced with a carbonyl linker [13]. The common structural features of CBSIs include the 3,4,5-Trimethoxyphenyl unit and the appropriate distance and certain dihedral angle between the aromatic rings. These were proposed as important structural features that are responsible for their antiproliferative and antitubulin activities [6].
Fig 1
(A) Structures of known tubulin inhibitors. (B) Superposition of the skeletal structure of target compounds 10a-m and SMART. All density functional theory calculations and geometry optimizations were performed using the Gaussian 09 software.
(A) Structures of known tubulin inhibitors. (B) Superposition of the skeletal structure of target compounds 10a-m and SMART. All density functional theory calculations and geometry optimizations were performed using the Gaussian 09 software.The CBSIs 4-substituted methoxybenzoyl-aryl-thiazole (SMART, 5), 2-aryl-4-benzoyl-imidazole (ABI, 6), 4-aryl-2-benzoyl-imidazoles (RABI, 7) and 3-aroyl-1-arylpyrrole (ARAP, 8) are the representative synthetic CBSIs that exhibit potent antiproliferative activity (Fig 1A) [14-17]. Furthermore, a set of oxadiazole CBSIs with an oxime linker between the A-ring and the B-ring was previously reported by our group (9, Fig 1A) [18]. The structures of these CBSIs feature three aromatic rings (A-, B- and C- rings) and an sp2 hybridized linker between the A-ring and B-ring (Fig 1A).2-Aminothiazoles and derivatives are seen in many bioactive scaffolds and exhibit a variety of biological properties, including anticancer activity [19]. Furthermore, CBSIs containing an sp3 amino linker have also been reported [20]. In our continued research into novel CBSIs [18, 21, 22], we hypothesized that the sp2 linker between the A- and B-rings could be replaced by a sp3 amino linker and that the substitutions on the A- and C-rings could be different groups. As expected from calculations using the Gaussian 09 software, the skeletal structure of target compounds superimposed well with that of SMART (Fig 1B). In this study, we report the verification of our hypothesis through the synthesis and biological evaluation of the designed target CBSIs (Table 1). In addition, the preliminary structure-activity relationships and the mechanism of the representative compound 10s are investigated and determined.
Table 1
Molecular structures of compounds 10a-v.
Structures
R1
R2
R3
R4
R5
R6
R7
R8
R9
10a
H
OCH3
OCH3
OCH3
H
H
CH3
H
H
10b
H
OCH3
OCH3
OCH3
H
H
OCH3
H
H
10c
H
OCH3
OCH3
OCH3
H
H
F
H
H
10d
H
OCH3
OCH3
OCH3
H
H
Cl
H
H
10e
H
OCH3
OCH3
OCH3
H
H
Br
H
H
10f
H
OCH3
OCH3
OCH3
H
H
NO2
H
H
10g
H
OCH3
OCH3
OCH3
H
H
OCH3
OCH3
H
10h
H
OCH3
OCH3
OCH3
H
H
OCH3
F
H
10i
H
OCH3
OCH3
OCH3
H
H
OCH3
NO2
H
10j
H
OCH3
OCH3
OCH3
H
H
OCH3
NH2
H
10k
H
OCH3
OCH3
OCH3
H
H
OCH3
OBn
H
10l
H
OCH3
OCH3
OCH3
H
H
OCH3
OH
H
10m
H
OCH3
OCH3
OCH3
H
H
F
F
H
10n
H
OCH3
H
OCH3
H
H
OCH3
H
H
10o
H
H
OCH3
H
H
OCH3
OCH3
OCH3
H
10p
H
CH3
CH3
H
H
H
OCH3
NO2
H
10q
H
CH3
CH3
H
H
H
OCH3
NH2
H
10r
OCH3
H
OCH3
H
H
H
CH3
H
H
10s
OCH3
H
OCH3
H
H
H
OCH3
H
H
10t
OCH3
H
OCH3
H
H
H
OCH3
H
OCH3
10u
OCH3
H
OCH3
H
CH3
H
OCH3
H
H
10v
OCH3
H
OCH3
H
Ac
H
OCH3
H
H
Results and discussion
Chemistry
The target compounds contained a 2-aminothiazole (2-AT) scaffold that has been widely used by medicinal chemists in drug discovery research. Few drugs containing a 2-AT core (e.g., mirabegron, riluzole, cefotaxime and meloxicam) have been launched in the market [23]. In our designed compounds, the amino group played a vital role in maintaining the spatial configuration and biological activity of target compounds. Target compounds were prepared as outlined in Fig 2. In brief, the condensation of commercially aniline derivatives 11 with carbon disulfide in the presence of triethylamine gave the corresponding dithiocarbamatets 12 at room temperature at an 80–96% yield [24]. Subsequently, dithiocarbamates 12 were used for the synthesis of aryl thioamides 14 using an efficient one-pot method [25]. More speculatively, dithiocarbamates 12 in ethyl acetate were incubated with triethylamine at 0°C. Iodine was then added pinch-wise over a period of 15 minutes to yield phenylisothiocyanates 13, which were then reacted with ammonium hydroxide to obtain the key intermediates aryl thioureas 14 at room temperature. Alternatively, the commercially available starting acetophenones 15 were subjected to α-bromination with copper dibromide in refluxing chloroform-ethyl acetate to produce α-bromoacetophenones 16 at 75–95% yield. Finally, α-bromoacetophenones 16 were reacted with aryl thioureas 14 to generate the desired compounds 10a-t in ethanol within 5 min under microwave irradiation (150 W, 80°C) in the absence of catalysts [26]. The compound 10u was obtained by a simple reaction of the compound 10s with methyl iodide in anhydrous DMF, and the compound 10v was obtained by an acetylation reaction of compound 10s with acetic anhydride.
Gastric cancer and lung cancers are the two most common cancers and the two most frequent causes of cancer-related deaths [27]. HT-1080 is a fibrosarcoma cell line which has been used extensively in biomedical research [28]. So we chose these three humancancer cell lines (gastric adenocarcinomaSGC-7901 cells, lung adenocarcinoma A549 cells and fibrosarcomaHT-1080 cells) for antiproliferative activity. To evaluate the ability of various 2-aminothiazole derivatives to inhibit cancer cell growth, the target compounds 10a-v, reference compounds CA-4 (2), nocodazole (3) and SMART (5) were screened for antiproliferative activity in three humancancer cell lines using a standard MTT assay (Table 2). The reported IC50 values are the average of at least three independent experiments. As illustrated in Table 2, most of the target compounds showed moderate anti-proliferative activities with potencies in the μM range. Comparison of the IC50 values of the corresponding compounds 10a-m with 3,4,5-trimethoxy (R2, R3, R4 = OMe) substitution revealed that only the 3-hydroxy-4-methoxy-substituted compound 10l significantly inhibited growth of the HT-1080 cell line at sub-micromolar concentrations. The target compounds contain halide substituents that has been widely used by medicinal chemists in CBSI research, so we synthesis these compounds to evaluate the potential antiproliferative activities. Unexpectedly, we found that these compounds (10c, 10d, 10e, 10h, 10m) showed only moderate antiproliferative activities. Interestingly, the most significant enhancement of antiproliferative activity was observed in the amino-linked compounds where the A ring accommodates the 2,4-dimethoxy substitutions. N-(2,4-dimethoxyphenyl)-4-(4-methoxyphenyl)-1,3-thiazol-2-amine 10s exhibited the most potent antiproliferative activity, with IC50 values between 0.36 and 0.86 μM in the three cancer cell lines. However, the introduction of a methyl (10u) or acetyl (10v) group at the N position of the 2-aminothiazole skeleton resulted in reduced activity compared to the corresponding compound (10s).
Table 2
Antiproliferative activity of compounds 10a-v, CA-4 (2), Nocodazole (3) and SMART (5).
Antiproliferative activity (IC50± SD, μM) a
Compounds
SGC-7901
A549
HT-1080
10a
1.12 ± 0.13
1.32 ± 0.12
1.17 ± 0.19
10b
7.72 ± 0.26
26.8 ± 2.2
26.8 ± 1.2
10c
27.7 ± 4.9
16.1 ± 1.1
7.40 ± 0.42
10d
8.22 ± 0.17
1.80 ± 0.19
1.26 ± 0.25
10e
2.30 ± 0.32
3.18 ± 0.16
6.61 ± 0.18
10f
>100
23.6 ± 2.3
>100
10g
4.89 ± 0.15
5.36 ± 0.16
6.94 ± 0.14
10h
4.92 ± 0.12
6.17 ± 0.32
5.48 ± 0.21
10i
9.11 ± 0.62
9.25 ± 0.33
6.24 ± 0.24
10j
1.17 ± 0.17
6.54 ± 0.16
4.69 ± 0.62
10k
13.0 ± 2.1
13.1 ± 1.1
5.01 ± 0.18
10l
1.36 ± 0.09
3.21 ± 0.17
0.77 ± 0.11
10m
10.1 ± 1.1
26.4 ± 1.3
8.46 ± 0.17
10n
0.82 ± 0.06
9.62 ± 0.17
3.36 ± 0.11
10o
19.5 ± 2.4
17.7 ± 1.6
12.7 ± 1.9
10p
9.89 ± 0.18
12.8 ± 1.3
25.8 ± 3.5
10q
14.8 ± 1.5
10.9 ± 3.2
4.89 ± 0.25
10r
1.6 ± 2.2
1.82 ± 0.12
1.95 ± 0.13
10s
0.36 ± 0.19
0.86± 0.07
0.58 ± 0.13
10t
10.1 ± 1.0
11.4 ± 1.3
2.46 ± 0.17
10u
28.2 ± 1.9
19.0 ± 2.0
9.39 ± 0.21
10v
23.2 ± 0.11
35.7 ± 0.08
56.6 ± 1.0
CA-4 (2)b
0.025 ± 0.012
0.019 ± 0.011
0.032 ± 0.006
Nocodazole (3)b
0.24 ± 0.07
0.15 ± 0.09
0.12 ± 0.08
SMART (5)b
0.045 ± 0.013
0.059 ± 0.012
0.032 ± 0.009
a IC50: Concentration of the compound (μM) that resulted in 50% cell growth inhibition after 72 h of drug exposure, as determined by the MTT assay. Each experiment was carried out in triplicate.
b Used as a positive control.
a IC50: Concentration of the compound (μM) that resulted in 50% cell growth inhibition after 72 h of drug exposure, as determined by the MTT assay. Each experiment was carried out in triplicate.b Used as a positive control.
Tubulin polymerization
CBSIs exert their biological activity by inhibiting tubulin assembly. To confirm that the antiproliferative activities of these compounds were related to the microtubule system, the most active compound 10s was evaluated for tubulin polymerization inhibition compared to the positive control CA-4 and the negative control paclitaxel. As shown in Fig 3, both CA-4 and 10s inhibited tubulin assembly, and compound 10s inhibited tubulin polymerization in a dose-dependent manner. However, compound 10s displayed less active antitubulin activity than did CA-4 (IC50 = 26.8 μM and 0.64 μM, respectively). In contrast, paclitaxel enhanced the rate of tubulin polymerization compared with untreated cells. These results suggested that compound 10s interfered with microtubule polymerization.
Fig 3
Effects of 10s on tubulin polymerization.
Tubulin was pre-incubated for 1 min with 10s at 2 μM, 10 μM, 25 μM and 50 μM, CA-4 at 0.5 μM, paclitaxel at 5 μM or vehicle DMSO (control) at room temperature before GTP was added to start the tubulin polymerization reactions. The reaction was monitored at 37°C.
Effects of 10s on tubulin polymerization.
Tubulin was pre-incubated for 1 min with 10s at 2 μM, 10 μM, 25 μM and 50 μM, CA-4 at 0.5 μM, paclitaxel at 5 μM or vehicle DMSO (control) at room temperature before GTP was added to start the tubulin polymerization reactions. The reaction was monitored at 37°C.
Analysis of immunofluorescence staining
Colchicine binding site inhibitors could inhibit tubulin assembly and suppress microtubule formation. With the goal of ascertaining the mechanism of action of compound 10s, we decided to use a 0.72 μM drug concentration for the cell microtubule organization studies. As shown in Fig 4, the fibrous microtubules (green) and the cell nucleus (blue) were visualized upon the immunofluorescence staining of SGC-7901 cells. These results implied that 10s and CA-4 induced significant defects in tubulin assembly in the treated cells, leading to the formation of abnormal mitotic spindles in comparison with the control. These results further confirmed that tubulin was the molecular target for compound 10s.
Fig 4
Immunostaining of tubulin assembly in SGC-7901 cells.
SGC-7901 cells were treated with 10s (0.72 μM) for 48 h. Tubulin assembly was stained with FITC (left panel) and DAPI (middle panel). A merge of the two panels is shown on the right. Images were taken using a confocal microscope.
Immunostaining of tubulin assembly in SGC-7901 cells.
SGC-7901 cells were treated with 10s (0.72 μM) for 48 h. Tubulin assembly was stained with FITC (left panel) and DAPI (middle panel). A merge of the two panels is shown on the right. Images were taken using a confocal microscope.
Cell cycle study
Because tubulin inhibitors can arrest dividing cells in the G2/M phase of the cell cycle, the effect of 10s on the cell cycle progression of SGC-7901 cells was investigated by flow cytometry analysis. As demonstrated in Fig 5A, 10s caused a dramatic increase in G2/M phase cell counts in a concentration-dependent manner. Furthermore, treatment of SGC-7901 cells with 10s (0.72 μM) or CA-4 (0.05 μM) from 6 to 24 h induced a dramatic increase in the number of cells in the G2/M phase in a time-dependent manner. These results further demonstrated that 10s was a tubulin inhibitor.
Fig 5
(A) 10s caused G2/M phase arrest in a concentration-dependent manner in SGC-7901 cells. Cells were treated with 10s (0.18, 0.36, 0.72 μM) for 24 h. (B) 10s and CA-4 induced G2/M phase arrest in a time-dependent manner. SGC-7901 cells were treated with 10s (0.72 μM) or CA-4 (0.05 μM) for 6, 12 and 24 h.
(A) 10s caused G2/M phase arrest in a concentration-dependent manner in SGC-7901 cells. Cells were treated with 10s (0.18, 0.36, 0.72 μM) for 24 h. (B) 10s and CA-4 induced G2/M phase arrest in a time-dependent manner. SGC-7901 cells were treated with 10s (0.72 μM) or CA-4 (0.05 μM) for 6, 12 and 24 h.
Molecular modeling
Molecular modeling studies were performed to investigate the potential binding ability of the most active compound 10s and a moderate compound 10u to the colchicine binding site of α- and β-tubulin. The molecular modeling study was performed using the CDOCKER protocol in Discovery Studio 3.0 with the default settings to predict the binding mode of our ligand (PDB: 3HKD). These studies showed that 10s, 10u and SMART can occupy the colchicine binding site of tubulin (Fig 6). The trimethoxyphenyl moiety of SMART and the dimethoxyphenyl moiety of 10s and 10u in the A-rings extended toward the α- and β-tubulin interfaces. Several amino acids of β-tubulin formed hydrophobic interactions with compounds 10s and 10u. The thiol group of Cys β241 formed a hydrogen bond with the nitrogen atom of the amino linker and the methoxy oxygen atom in ring A of 10s formed a hydrogen bond with the hydroxyl group of Thr α179. However, the thiol group of Cys β241 could not form a hydrogen bond with the nitrogen atom of 10u due to the methyl group on nitrogen atom. This may be the reason that the activities of 10u was less active than 10s. The docking study results revealed that 10s could bind the colchicine binding site of tubulin.
Fig 6
(A). The binding mode of compound 10s (violet), 10u (cyan) and SMART (green) in the colchicine binding site of tubulin. (B).Overlay of 10s in the binding site. Hydrogen bonds are shown using green dashed lines and the distance is less than 3 Å. (C).Overlay of 10u in the binding site.
(A). The binding mode of compound 10s (violet), 10u (cyan) and SMART (green) in the colchicine binding site of tubulin. (B).Overlay of 10s in the binding site. Hydrogen bonds are shown using green dashed lines and the distance is less than 3 Å. (C).Overlay of 10u in the binding site.
QSAR model
By using the Create 3D QSAR protocol in Discovery Studio 3.0, twenty-one synthesized compounds with definite IC50 values against SGC-7901 were selected as the model dataset. By convention, we used the pIC50 scale (−log IC50), in which higher values indicate exponentially greater potency, to measure inhibitory activity. The training set and testing set were chosen by the Diverse Molecules method in Discovery Studio 3.0. To ensure a good alignment, we chose the alignment conformation of each molecule with the lowest energy in the docked results of the CDOCKER protocol. We applied the alignment of the substructure 10a before building the QSAR model. The correlation coefficient r2 between the observed activity of the testing set and the training set was found to be 0.992; therefore, the QSAR model that we built was acceptable (greater than 0.5, Fig 7). Additionally, the molecules that aligned with the iso-surfaces of the 3D-QSAR model (Organic & Biomolecular Chemistry Page 10 of 349 coefficients) on Van der Waals grids (Fig 8A) and electrostatic potential grids (Fig 8B) were listed. Our electrostatic map indicated red contours around regions where high electron density (negative charge) was expected to increase activity, and blue contours represented areas where low electron density (partial positive charge) was expected to increase activity. Similarly, our steric map indicated areas where steric bulk was predicted to increase (green) or decrease (yellow) activity. It was widely acceptable that a better inhibitor based on the 3D QSAR model should have stronger Van der Waals attractions in the green areas and a polar group in the blue electrostatic potential areas (which were dominant close to the skeleton). Thus, this promising model would provide a guideline to design and optimize more effective tubulin inhibitors based on the N,4-diaryl-1,3-thiazole-2-amines skeleton and pave the way for us to further study these compounds in the future.
Fig 7
We used a linear fitting curve to compare the predicted pIC50 values (modeled based on a known dataset of 21 defined compounds in SGC-7901 cells) with the experimental pIC50 values.
y = 0.992x + 0.007, R – square = 0.992.
Fig 8
(A). 3D-QSAR model coefficients on electrostatic potential grids. Blue represents positive coefficients; red represents negative coefficients. (B). 3D-QSAR model coefficients on Van der Waals grids. Green represents positive coefficients; yellow represents negative coefficients. (For interpretation of the references to color in this figure legend, the reader is referred to the web version of this article.)
We used a linear fitting curve to compare the predicted pIC50 values (modeled based on a known dataset of 21 defined compounds in SGC-7901 cells) with the experimental pIC50 values.
y = 0.992x + 0.007, R – square = 0.992.(A). 3D-QSAR model coefficients on electrostatic potential grids. Blue represents positive coefficients; red represents negative coefficients. (B). 3D-QSAR model coefficients on Van der Waals grids. Green represents positive coefficients; yellow represents negative coefficients. (For interpretation of the references to color in this figure legend, the reader is referred to the web version of this article.)
Conclusions
In summary, we designed and synthesized a series of N,4-diaryl-1,3-thiazole-2-amines containing three aromatic rings with an amino linker as novel CBSIs. Most of the target compounds showed moderate anti-proliferative activity in different cancer cells lines with potencies in the μM range. Among them, N-(2,4-dimethoxyphenyl)-4-(4-methoxyphenyl)-1,3-thiazol-2-amine, 10s, was found to be the most potent compound with IC50 values at the submicromolar level in three humancancer cell lines. Tubulin polymerization and immunostaining experiments revealed that 10s potently inhibited tubulin polymerization and disrupted tubulin microtubule dynamics in a manner similar to CA-4. Moreover, 10s effectively induced SGC-7901 cell cycle arrest at the G2/M phase in both concentration- and time-dependent manners. Molecular docking results revealed that 10s could bind the colchicine binding site of tubulin. Taken together, the present study indicates that the utilization of an sp3 amino linker to replace the sp2 carbonyl linker can be one of the future directions of novel CBSI synthesis and is deserving of further study. Investigation of the modification of these novel CBSIs and mechanistic studies for anticancer properties are underway in our lab. We will continue to optimize and refine the modification of these compounds and will then select one or two active compounds for in vivo testing.
Experimental section
All solvents and chemical materials were obtained from commercially available sources and were used without purification. The microwave reactions were performed on a discover-sp single mode microwave reactor from CEM Corporation. The progress of reactions was monitored by TLC using silica gel plates under UV light. NMR spectra were recorded on a Bruker AVANCE 400, or 600 spectrometer (1H, 400 MHz, 600 MHz; 13C, 100 MHz, 150 MHz), in CDCl3 or DMSO-d6 (TMS was used as an internal standard). Chemical shifts are expressed as parts per million downfield from tetramethylsilane. Mass spectra (MS) were measured on an Agilent 1100-sl mass spectrometer with an electrospray ionization source. Melting points were measured on a hot stage microscope (X-4, Beijing Taike Ltd.) and are uncorrected.
General synthetic procedures for N,4-diaryl-1,3-thiazole-2-amines 10a-v
MTT assay: The SGC-7901, A549 and HT-1080 cell lines were purchased from the American Type Culture Collection (ATCC, Manassas, VA, USA). The in vitro antiproliferative activities of CA-4 (2), Nocodazole (3) and all of the target compounds were determined with an MTT assay following a previously reported method [21,22].Tubulin assembly assay: The effect of 10s on the polymerization of purified brain tubulin was determined using a fluorescence-based tubulin polymerization assay kit (Cat. #BK011P, Cytoskeleton, Inc., USA) following a previously reported method [22].Immunofluorescence assay: Immunostaining was performed to detect the microtubule-associated tubulin protein after exposure to CA-4 (2) or the investigated compound 10s following a previously reported method [21,22].Cell cycle analysis: SGC-7901 cells (8 × 104 cells) were incubated with various concentrations of CA-4 (2), 10s or 0.05% DMSO for the indicated times. The cells were collected by centrifugation, washed with PBS and fixed in ice-cold 70% ethanol. The fixed cells were harvested by centrifugation and resuspended in 500 μl of PBS containing 1 mg/mL RNase. After 30 min of incubation at 37°C, the cells were stained with 50 mg/mL propidium iodide (PI) at 4°C in the dark for 30 min. The samples were then analyzed by FACScan flow cytometry (Becton-Dickinson, Franklin Lakes, NJ, USA). The experiments were repeated at least three times.Molecular modeling: The molecular modeling studies were performed using Accelrys Discovery Studio 3.0. The crystal structure of tubulin complexed with DAMA-colchicine (PDB: 3HKD) was retrieved from the RCSB Protein Data Bank (http://www.rcsb.org/pdb). In the docking process, the protein protocol was prepared via several operations, including the standardization of atom names, insertion of missing atoms in residues and removal of alternate conformations, insertion of missing loop regions based on SEQRES data, optimization of short and medium sized loop regions with the Looper Algorithm, minimization of remaining loop regions, calculation of pK, and protonation of the structure. The receptor model was then typed with the CHARMm force field, and a binding sphere with a radius of 9.0 Å was defined with the original ligand (DAMA-colchicine) as the binding site. The 10s was drawn with Chemdraw and fully minimized using the CHARMm force field. Finally, 10s was docked into the binding site using the CDOCKER protocol with the default settings.QSAR Model: In the model, 80% of the target compounds were utilized as a training set for QSAR modeling. The remaining 20% were chosen as a test subset using the same protocol. The literature-based inhibitory activity values of the known compounds [IC50 of SGC-7901 cells] were initially converted into the minus logarithmic scale [pIC50] and then used for subsequent QSAR analysis as the response variable. In Discovery Studio, the CHARMm force field was applied and the electrostatic potential together with the Van der Waals potential were treated as separate terms. As the electrostatic potential probe, A+ le point change was used while distance-dependent dielectric constant was used to mimic the solvent effect. A carbon atom with a radius of 1.73 Å was used as a probe for the Van der Waals potential. A Partial Least-Squares (PLS) model was built using energy grids as descriptors. QSAR models were built by using the Create 3D QSAR Model protocol in Discovery Studio 3.0.(1). Synthesis. 1. General synthetic procedures for aryl thioamides 14. 2. General synthetic procedures for α-bromoacetophenones 16. (2). Contents: 1H-NMR and 13C-NMR spectra of all target compounds.(PDF)Click here for additional data file.
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