Design, synthesis and SAR study of novel trisubstituted pyrimidine amide derivatives as CCR4 antagonists

Article abstract of DOI:10.3390/molecules19033539

The design, synthesis and structure-Activity relationship studies of some novel trisubstituted pyrimidine amide derivatives prepared as CCR4 antagonists are described. The activities of these compounds were evaluated by the CCR4-MDC chemotaxis inhibition assay. Compound 1, which we have previously reported as a potent antagonist of CCR4, was employed as the positive control. The results indicated that most of the synthesized compounds exhibited some chemotaxis inhibition activity against CCR4. Of these new compounds, compounds 6c, 12a and 12b, with IC50 values of 0.064, 0.077 and 0.069 μM, respectively, showed higher or similar activity compared with compound 1 (IC50 of 0.078 μM). These compounds provide a basis for further structural modifications. The systematic structure-Activity relationship of these trisubstituted pyrimidine amide derivatives was discussed based on the obtained experimental data. The results from the SAR study may be useful for identifying more potent CCR4 antagonists.

Full text of DOI:10.3390/molecules19033539

Molecules 2014, 19, 3539-3551; doi:10.3390/molecules19033539
OPEN ACCESS
molecules
ISSN 1420-3049
www.mdpi.com/journal/molecules
Article
Design, Synthesis and SAR Study of Novel Trisubstituted
Pyrimidine Amide Derivatives as CCR4 Antagonists
Libao Xu 1,2, Yang Zhang 3, Wenjie Dai 4, Ying Wang 3, Dan Jiang 2, Lili Wang 2,
Junhai Xiao 2,*, Xiaohong Yang 1,* and Song Li 1,2
1
School of Pharmaceutical Sciences, Jilin University, Changchun 130021, China;
E-Mails: xulibao2003@163.com (L.X.); lis@bmi.ac.cn (S.L.)
2
Laboratory of Computer-Aided Drug Design & Discovery, Beijing Institute of Pharmacology &
Toxicology, Beijing 100850, China;
E-Mails: jiangdan@263.net.cn (D.J.); wangll63@126.com (L.W.)
3
Department of Immunology, School of Basic Medical Sciences, Key Laboratory of Medical
Immunology, Ministry of Health, Peking University Health Science Center, Beijing 100191, China;
E-Mails: byzhangyang08@163.com (Y.Z.); yw@bjmu.edu.cn (Y.W.)
4
Shenyang Pharmaceutical University, 103 Wenhua Road, Shenhe District, Shenyang 110016, China;
E-Mail: wenjiedai.2009@163.com
* Authors to whom correspondence should be addressed; E-Mails: xiaojunhai@139.com (J.X.);
xiaohongyang88@126.com (X.Y.); Tel.: +86-10-6693-0673 (ext. 713) (J.X.);
+86-431-8561-9660 (X.Y.).
Received: 26 January 2014; in revised form: 17 March 2014 / Accepted: 18 March 2014 /
Published: 21 March 2014
Abstract: The design, synthesis and structure-activity relationship studies of some novel
trisubstituted pyrimidine amide derivatives prepared as CCR4 antagonists are described.
The activities of these compounds were evaluated by the CCR4-MDC chemotaxis
inhibition assay. Compound 1, which we have previously reported as a potent antagonist of
CCR4, was employed as the positive control. The results indicated that most of the
synthesized compounds exhibited some chemotaxis inhibition activity against CCR4. Of
these new compounds, compounds 6c, 12a and 12b, with IC50 values of 0.064, 0.077 and
0.069 μM, respectively, showed higher or similar activity compared with compound 1
(IC50 of 0.078 μM). These compounds provide a basis for further structural modifications.
The systematic structure-activity relationship of these trisubstituted pyrimidine amide
derivatives was discussed based on the obtained experimental data. The results from the
SAR study may be useful for identifying more potent CCR4 antagonists.

Molecules 2014, 19
Keywords: antagonists; pyrimidine amides; synthesis; structure-activity relationship
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1. Introduction
Chemokines are a large family of small chemotactic proteins of 8–10 kDa in size. In humans,
chemokine family members now number more than 50. According to the number and relative position
of conserved cysteine residues near the N-terminus of each protein, chemokines are divided into four
major groups: C, CC, CXC and CX3C. Chemokine receptors, containing a characteristic seven
transmembrane structure, belong to the class A family of G protein-coupled receptors (GPCR) and are
coupled with the Gαi class of heterotrimeric G proteins. They are also classified into four groups in
relation to the subfamily of major chemokine ligands to which they bind. To date, 18 typical
chemokine receptors have been described in humans, including one C, ten CC, six CXC and one
CX3C chemokine receptor [1–3]. Chemokines and their receptors play a key role in immune responses
by directing and controlling the migration, activation, differentiation and survival of leukocytes.
Binding of chemokines to their innate receptors on the cell surface can trigger a serial complex
signaling cascade that leads to inflammatory mediator release, changes in cell morphology, cell
proliferation and migration [4,5]. They have been associated with the pathogenesis of multiple
inflammatory diseases and cancer progression.
The CC-chemokine receptor 4 (CCR4) belongs to the CC family of chemokine receptors. CCR4
was first cloned from a human basophilic cell line in 1995. Three natural chemokine ligands for
CCR4 have been identified as thymus and activation-regulated chemokine (TARC, CCL17),
macrophage-derived chemokine (MDC, CCL22) and chemokine-like factor 1 (CKLF1). Among them,
TARC and MDC are highly specific biological ligands with strong affinities for CCR4 [6]. CCR4 is
mainly expressed on T helper 2 (Th2) type CD4+ T-cells that produce Th2 cytokines, such as
interleukin-4, -5 and -13. Th2 cytokines are believed to help accelerate the allergic inflammation
response [7]. Upon activation, CCR4 can drive CD4+ Th2 cells to migrate toward inflamed tissues.
Up regulation of TARC and MDC as well as accumulation of CCR4-positive cells have been observed
in inflamed tissues of patients suffering from allergic diseases. It has been demonstrated that
antagonism of MDC or TARC can reduce the migration of T-cells into sites of inflammation [8,9].
Thus CCR4 and its ligands play a critical role in the development of allergic inflammatory conditions
such as asthma, atopic dermatitis, and rhinitis [10]. Targeting CCR4 has become a novel therapeutic
strategy for these diseases where CCR4 has a central role in pathogenesis.
A number of small molecular CCR4 antagonists have been reported in the literature [11–14]. These
highly active antagonists can be divided into three categories based on their skeletal structures:
pyrimidine analogs, pyrazine arylsulfonamides and indazole arylsulfonamides. Recently, we reported a
novel trisubstituted pyrimidine compound 1 (Figure 1) as a potent antagonist of CCR4 [15]. It can
inhibit the migration of CCR4-positive cells induced by MDC, TARC, and CKLF1. We report herein an
expanded structure-activity relationship study of compound 1. A series of novel trisubstituted pyrimidine
amide analogs have been designed, synthesized and evaluated by a chemotaxis inhibition assay.

Molecules 2014, 19
Figure 1. Structure of the compound 1 and the initial strategy for exploring the SAR.
3541
2. Results and Discussion
2.1. Chemistry
In order to explore the initial SAR, we focused on the three major areas of the lead compound 1, as
shown in Figure 1: the right-side carbonyl group, the left-side substituted amide and the 6-substituted
group of the central pyrimidine ring. Through optimization of the substituents in these three areas, we
sought to identify more potent CCR4 antagonists. Based on these starting points, a series of novel
trisubstituted pyrimidine amide compounds 6a–e, 7a, 7b and 12a–d were synthesized as summarized
in Schemes 1 and 2 [15–18]. The synthetic route outlined in Scheme 1 started with reaction of
commercially available 2,4,6-trichloropyrimidine (2) with N-ethoxycarbonylpiperidine in the presence
of base. The product, compound 3, which was obtained through chromatography was subsequently
reacted with ortho- and (or) para-substituted benzylamines with heating to give compounds 4.
Treatment of compounds 4 with a mixture of 10% NaOH aqueous solution and ethanol under
reflux for 12 h provided the deprotected intermediates 5. Compounds 5 were condensed with a
series of commercially available carboxylic acids to afford the desired target compounds 6a–e. The
compounds 7a and 7b were synthesized in one step from compound 1 (Scheme 1). The preparation of
compounds 12a–d is summarized in Scheme 2. 2,4-Dichloro-6-methylpyrimidine (8) was reacted with
2,4-dichlorobenzylamine to give intermediate 9, which was coupled with N-ethoxycarbonylpiperidine and
the ethoxycarbonyl group was then deprotected to obtain compound 11, which was reacted with
different carboxylic acids to afford compounds 12a–d.
2.2. Chemotaxis Activity Assay and Discussion
All the newly synthesized compounds were evaluated by a CCR4-MDC chemotaxis inhibition
assay. Compound 1 was employed as the positive control. The activity results are summarized in
Table 1. All of the newly synthesized compounds except 6a and 6b exhibited some chemotaxis
inhibition activity against CCR4.

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Scheme 1. The synthetic routes to compounds 6a–e, 7a and 7b.
Reagents and Conditions: (a) N-ethoxycarbonylpiperidine, DIEA, DCM, r.t., 2 h, 24%; (b) Substituted
benzylamine, DIEA, NMP, 90 °C, 12 h; (c) 10% NaOH aq, EtOH, reflux, 24 h; (d) R3COOH, EDCI, HOBt, TEA,
DCM, r.t.; (e) Deprotection: 4 M HCl/dioxane, DCM, r.t., 2 h; (f) Piperidine or morpholine, reflux, overnight.
Scheme 2. The synthetic route to compounds 12a–d.
Reagents and Conditions: (a) 2,4-dichlorobenzylamine, DIEA, DCM, reflux, 24 h, 64%; (b) DIEA, NMP,
N-ethoxycarbonylpiperidine, 90 °C, 12 h; (c) 10% NaOH aq, EtOH, reflux, 24 h; (d) R3COOH, EDCI, HOBt,
TEA, DCM, r.t., overnight; (e) Deprotection: 4 M HCl/dioxane, DCM, r.t., 2 h.

Molecules 2014, 19
Table 1. Chemotaxis inhibition activity of trisubstituted pyrimidine derivatives.
3543
Compound
IC50 (μM)
0.078 ± 0.013
NA a
1
6a
6b
NA a
6c
0.064 ± 0.015
0.458 ± 0.051
0.094 ± 0.017
0.133 ± 0.021
0.395 ± 0.066
0.077 ± 0.013
0.069 ± 0.015
0.178 ± 0.028
0.235 ± 0.045
6d
6e
7a
7b
12a
12b
12c
12d
a NA indicates no significant inhibition.
Of these compounds, 6c, 12a and 12b showed higher or similar activity compared with compound 1
(IC50 0.078 μM) with IC50 values of 0.064, 0.077 and 0.069 μM, respectively. The SAR of the
right-side carbonyl group of compound 1 was explored first through designing and synthesizing
analogs 6a–c and comparing them to compound 1. Both replacement of the piperidinyl group with a
pyridinyl group (compound 6a) and removal of the nitrogen atom of piperidine (compound 6b) did not
result in significant inhibition activity. The simplification of the piperidine group (compound 6c)
resulted in similar activity compared with compound 1. The results suggest that the saturated carbonyl
group containing a nitrogen atom is crucial for maintaining the activity at this position.
We next turned our attention to the left-side substituted amide portion. Compounds 6d and 6e were
designed so that the 2,4-dichlorobenzyl group was replaced by a 4-chlorobenzyl group and 2,4-difluoro
benzyl group, respectively. Compound 6d had significantly reduced activity and 6e had slightly
reduced activity compared with compound 1. These results illustrate that halogen group substitutions
at the 2- and 4-positions of the benzyl group are crucial for maintaining the activity.
The SAR around the 6-substituted group of the central pyrimidine ring of compound 1 was then
explored. Replacement of the chlorine substituent group of the pyrimidine with a piperidinyl or
morpholinyl ring afforded the corresponding compounds 7a or 7b. Compared with compound 1,
compounds 7a and 7b exhibited relatively poorer activity. This implied that small and less polar
substituents are beneficial for maintaining the activity. In order to confirm further this, compound 12a
was synthesized where a methyl group was substituted at the 6-position of the pyrimidine. Its activity
was similar to compound 1.
Based on these preliminary SARs, we designed and synthesized compounds 12b–d. Compound 12b
showed similar activity as compound 1. These results further prove that the SAR conclusions above
are correct. Compounds 12c and 12d exhibited relatively weak activity. The results illustrate that a
nitrogen atom at the α-position of the right-side carbonyl group is better than at the γ-position, and
replacement of the nitrogen atom of the right-side carbonyl group with oxygen significantly reduces
the activity.

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3. Experimental
3.1. General
Melting points were determined using a YRT-3 melting point detector (P.I.F. Tianjin University,
1
Tianjin, China) and have been reported as uncorrected values. The H-NMR (400 MHz) and
13C-NMR (100 MHz) spectra were recorded using a Bruker ARX 400 spectrometer (Karlsruhe,
Germany). The mass spectra were determined using an Agilent 5875(ESI) spectrometer (Palo Alto,
CA, USA). The high resolution mass spectra were determined using an Agilent 6230A instrument.
All solvents and reagents were purchased commercially and used without further purification.
3.2. Chemical Synthesis
3.2.1. Procedure for the Synthesis of Compounds 6a–e
4,6-Dichloro-2-(4-ethoxycarbonylpiperazino)pyrimidine (3). Compound 3 was synthesized according
to a well-established literature procedure [15].
6-Chloro-2-(4-ethoxycarbonylpiperazino)-N-(2,4-dichlorobenzyl)pyrimidin-4-amine
(4a).
2,4-Dichlorobenzylamine (1.76 g, 10.0 mmol) and DIEA (2.60 g, 20.0 mmol) were added to a solution
of compound 3 (3.05 g, 10.0 mmol) in NMP (30 mL), and the resulting mixture was stirred at 90 °C
for 12 h. The reaction mixture was cooled to room temperature. Water was added, and the resulting
solution was extracted with ethyl acetate. The organic layer was washed with brine, dried over sodium
sulfate, filtered and concentrated in vacuo. The residue was purified by silica gel column
chromatography (hexane/ethyl acetate v/v = 5:2) to obtain compound 4a (4.12 g, 92.6%) as a white
1
solid. H-NMR (CDCl3) δ ppm: 7.41 (1H, d, J = 1.96 Hz), 7.27 (1H, d, J = 8.6 Hz), 7.23 (1H, d,
J = 8.4 Hz), 5.73 (1H, s), 5.10 (1H, brs), 4.57 (2H, s), 4.20–4.14 (2H, q), 3.74 (4H, m), 3.49 (4H, m),
1.30–1.26 (3H, t); ESI-MS: m/z = 444.3 [M+H]+.
6-Chloro-2-(4-ethoxycarbonylpiperazino)-N-(4-chlorobenzyl)pyrimidin-4-amine (4b). Compound 4b
was synthesized from compound 3 and 4-chlorobenzylamine according to the procedure described for
the synthesis of compound 4a. It was obtained as a white solid. 1H-NMR (CDCl3) δ ppm: 7.32 (2H, d,
J = 8.4 Hz), 7.24 (2H, d, J = 8.4 Hz), 5.73 (1H, s), 5.14 (1H, brs), 4.50 (2H, s), 4.19–4.14 (2H, q), 3.75
(4H, m), 3.62 (4H, m), 1.30–1.26 (3H, t); ESI-MS: m/z = 410.4 [M+H]+.
6-Chloro-2-(4-ethoxycarbonylpiperazino)-N-(2,4-difluorobenzyl)pyrimidin-4-amine (4c). Compound
4c was synthesized from Compound 3 and 2,4-difluorobenzylamine according to the procedure
described for the synthesis of compound 4a. It was obtained as a white solid. 1H-NMR (CDCl3) δ ppm:
7.30 (1H, m), 6.87–6.80 (2H, m), 5.74 (1H, s), 5.04 (1H, brs), 4.54 (2H, s), 4.20–4.14 (2H, q), 3.76
(4H, m), 3.49 (4H, m), 1.30–1.25 (3H, t); ESI-MS: m/z = 412.4 [M+H]+.
6-Chloro-2-piperazino-N-(2,4-dichlorobenzyl)pyrimidin-4-amine (5a). A mixture of compound 4a
(3.78 g, 8.5 mmol), 10% NaOH aqueous solution (40 mL) and ethanol (45 mL) was stirred at reflux
for 24 h. The reaction mixture was concentrated in vacuo. Water was added to the residue, and the

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3545
resulting mixture was extracted with dichloromethane. The organic layer was washed with brine, dried
over sodium sulfate, filtered and concentrated in vacuo. The residue was washed with hexane to give
compound 5a (3.02 g, 95.5%) as an off-white solid. This solid was used in a subsequent reaction
1
without further purification. H-NMR (CDCl3) δ ppm: 7.40 (1H, d, J = 1.96 Hz), 7.27 (1H, d,
J = 8.6 Hz), 7.22 (1H, d, J = 8.4 Hz), 5.68 (1H, s), 5.17 (1H, brs), 4.57 (2H, s), 3.72 (4H, m), 2.87 (4H,
m), 1.88 (1H, brs); ESI-MS: m/z = 372.0 [M+H]+.
6-Chloro-2-piperazino-N-(4-chlorobenzyl)pyrimidin-4-amine (5b). Compound 5b was obtained as an
off-white solid (2.75 g, 95.4%) from compound 4b according to the procedure given for the synthesis
of compound 5a. 1H-NMR (CDCl3) δ ppm: 7.30 (2H, d, J = 8.4 Hz), 7.22(2H, d, J = 8.4 Hz), 5.67 (1H, s),
5.14 (1H, brs), 4.50 (2H, s), 3.72 (4H, m), 2.86 (4H, m), 1.88 (3H, brs); ESI-MS: m/z = 338.1 [M+H]+.
6-Chloro-2-piperazino-N-(2,4-difluorobenzyl)pyrimidin-4-amine (5c). Compound 5c was obtained as
an off-white solid (2.73 g, 95.0%) from compound 4c according to the procedure described for the
1
synthesis of compound 5a. H-NMR (CDCl3) δ ppm: 7.29 (1H, m), 6.84 (2H, m), 5.74 (1H, s), 5.04
(1H, brs), 4.54 (2H, s), 3.73 (4H, m), 2.87 (4H, m), 1.89 (1H, brs); ESI-MS: m/z = 440.1 [M+H]+.
6-Chloro-2-[4-(pyridin-2-yl)carbonylpiperazino]-N-(2,4-dichlorobenzyl)pyrimidin-4-amine (6a). A
mixture of compound 5a (0.37 g, 1.0 mmol), EDCI (0.23 g, 1.2 mmol), HOBt (0.16 g, 1.2 mmol),
pyridine-2-carboxylic acid (0.13 g, 1.0 mmol), TEA (1 mL) and dichloromethane (20 mL) was stirred
at room temperature overnight. The reaction mixture was concentrated in vacuo. Water was added to
the residue, and the resulting mixture was extracted with ethyl acetate. The organic layer was washed
with brine, dried over sodium sulfate, filtered and concentrated in vacuo. The residue was purified by
silica gel column chromatography (hexane/ethyl acetate/methanol) to obtain compound 6a (0.38 g,
79.5%) as a white solid. M.p. 175.1–176.9 °C; 1H-NMR (CDCl3) δ ppm: 8.59 (1H, d, J = 4.7 Hz), 7.81
(1H, m, J1 = 7.5 Hz, J2 = 1.6 Hz), 7.68 (1H, m), 7.38 (2H, m), 7.25(1H, d, J = 8.4 Hz), 7.21 (1H, dd,
13
J1 = 8.4 Hz, J2 = 1.96 Hz), 5.73 (1H, s), 5.17 (1H, brs), 4.56 (2H, s), 3.87–3.62 (8H, m); C-NMR
(CDCl3): δ 167.6, 163.3, 160.7, 159.7, 153.7, 148.3, 137.1, 134.2, 133.7, 129.9, 129.3, 127.1, 124.6,
123.9, 92.6, 46.9, 44.1, 43.4, 42.2; ESI-MS: m/z = 477.0 [M+H]+; HRMS (TOF): calcd for
C21H19Cl3N6O [M+Na]+: 499.0579, Found: 499.0580.
6-Chloro-2-(4-cyclohexylcarbonylpiperazino)-N-(2,4-dichlorobenzyl)pyrimidin-4-amine
(6b).
Compound 6b was obtained as a white solid (0.41 g, 85.4%) from compound 5a and
cyclohexanecarboxylic acid according to the procedure described for the synthesis of compound 6a.
1
M.p. 175.3–177.1 °C; H-NMR (CDCl3) δ ppm: 7.41 (1H, d, J = 1.96 Hz), 7.29 (1H, d, J = 8.4 Hz),
7.23 (1H, dd, J1 = 8.4 Hz, J2 = 1.96 Hz), 5.74 (1H, s), 5.15(1H,brs), 4.58 (2H, s), 3.76–3.51 (8H, m),
2.48 (1H, m), 1.82–1.25 (10H, m); 13C-NMR (CDCl3): δ 174.8, 163.4, 160.7, 133.8, 129.9, 129.4,
127.2, 92.8, 45.0, 44.1, 43.6, 42.4, 41.3, 40.4, 29.3, 25.7; ESI-MS: m/z = 482.3 [M+H]+; HRMS (TOF):
calcd for C22H26Cl3N5O [M+Na]+: 504.1101, Found: 504.1009.
6-Chloro-2-[4-(N,N-dimethylaminomethyl)carbonylpiperazino]-N-(2,4-dichlorobenzyl)pyrimidin-4-amine
(6c). Compound 6c was obtained as a white solid (0.30 g, 65.4%) from compound 5a and
2-(dimethylamino)acetic acid according to the procedure given for the synthesis of compound 6a. M.p.

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1
166.5–168.5 °C; H-NMR (CDCl3) δ ppm: 7.41 (1H, d, J = 1.96 Hz), 7.27 (1H, d, J = 8.4 Hz), 7.23
(1H, dd, J1 = 8.4 Hz, J2 = 1.96 Hz), 5.74 (1H, s), 5.15(1H,brs), 4.58 (2H, s), 3.76 (4H, m), 3.63 (4H,
13
m), 3.21 (2H, s), 2.35 (6H, s); C-NMR (CDCl3): δ 168.6, 163.3, 160.7, 133.7, 133.6, 129.9, 129.2,
127.1, 92.4, 62.5, 45.4, 45.2, 44.0, 43.5, 42.3, 41.5; ESI-MS: m/z = 457.0 [M+H]+; HRMS (TOF):
calcd for C19H23Cl3N6O [M+H]+: 457.1072, Found: 457.1071.
(R)-6-Chloro-2-[4-(piperidin-2-yl)carbonylpiperazino]-N-(4-chlorobenzyl)pyrimidin-4-amine
(6d).
A mixture of compound 5b (0.51 g, 1.5 mmol), EDCI (0.35 g, 1.8 mmol), HOBt (0.24 g, 1.8 mmol),
(R)-N-piperidine-2-carboxylic acid (0.35 g, 1.5 mmol), TEA (1.5 mL) and dichloromethane (30 mL)
was stirred at room temperature overnight. The reaction mixture was concentrated in vacuo. Water was
added to the residue, and the resulting mixture was extracted with ethyl acetate. The organic layer was
washed with brine, dried over sodium sulfate, filtered, and concentrated in vacuo. The residue (0.74 g)
was dissolved in dichloromethane (10) and 4 M HCl in dioxane (0.5 mL) was added dropwise.
The reaction mixture was stirred at room temperature for 1 h. Then the pH of reaction mixture was
adjusted to 10 with a 10% NaOH aqueous solution. The resulting mixture was extracted with
dichloromethane. The organic layer was washed with brine, dried over sodium sulfate, filtered and
concentrated in vacuo. Ethyl acetate was added to the crude residue, stirred and filtered. The solid was
washed with additional ethyl acetate and dried to obtain compound 6d (0.47 g, 70.6%) as a white solid.
M.p. 100.3–101.9 °C; 1H-NMR (CDCl3) δ ppm: 7.30 (2H, d, J = 8.4 Hz), 7.24 (2H, d, J = 8.4 Hz), 5.74
(1H, s), 5.24 (1H, m), 4.48 (2H, s), 3.78–3.53 (8H, m), 3.43 (1H, m), 3.27 (1H, d), 2.80–2.74 (1H, m),
1.91 (1H, d), 1.76 (1H, d), 1.63 (1H, d), 1.55–1.47 (3H, m); 13C-NMR (CDCl3): δ 171.2, 163.4, 160.7,
136.9, 133.0, 128.7, 128.6, 92.7, 56.1, 45.1, 45.0, 44.4, 43.8, 43.4, 41.6, 29.3, 25.5, 23.8; ESI-MS:
m/z = 449.5 [M+H]+; HRMS (TOF): calcd for C22H28Cl2N6O [M+H]+: 449.1618, Found: 449.1618.
(R)-6-Chloro-2-[4-(piperidin-2-yl)carbonylpiperazino]-N-((2,4-difluorobenzyl)pyrimidin-4-amine (6e).
Compound 6c was obtained as a white solid (0.44 g, 65.4%) from compound 5c according to the
1
procedure described for the synthesis of compound 6d. M.p. 87.2–89.0 °C; H-NMR (CDCl3) δ ppm:
7.28 (1H, m), 6.84 (2H, m), 5.77 (1H, s), 5.11 (1H, m), 4.54 (2H, s), 3.79–3.47 (9H, m), 3.16 (1H, d),
2.76 (1H, brs), 2.71–2.65 (1H, m), 1.92 (1H, d), 1.73 (1H, d), 1.58 (1H, d), 1.50–1.45 (3H, m);
13C-NMR (CDCl3): δ 172.1, 163.3, 162.0, 161.0, 160.7, 159.5, 130.3, 111.3, 111.1, 103.8, 92.6, 56.4,
45.9, 45.6, 44.9, 43.8, 43.4, 41.5, 38.4, 30.0, 26.6, 24.3; ESI-MS: m/z = 451.3 [M+H]+; HRMS (TOF):
calcd for C21H25ClF2N6O [M+H]+: 451.1819, Found: 451.1816.
3.2.2. Procedure for the Synthesis of Compounds 7a and 7b
(R)-2-[4-(Piperidin-2-yl)carbonylpiperazino]-N-(2,4-dichlorobenzyl)-6-piperidino pyrimidin-4-amine (7a).
A mixture of compound 1 (0.48 g, 1.0 mmol) and piperidine (5 mL) was stirred at reflux overnight.
Water was added, and the resulting solution was extracted with ethyl acetate. The organic layer was
washed with brine, dried over sodium sulfate, filtered, and concentrated in vacuo. The residue was
purified by silica gel column chromatography (hexane/ethyl acetate/methanol) to obtain compound 7a
1
(0.28 g, 52.6%) as an off-white solid. M.p. 147.1–149.1 °C; H-NMR (CDCl3) δ ppm: 7.38 (1H, d,
J = 1.96 Hz), 7.32 (1H, d, J = 8.4 Hz), 7.19 (1H, dd, J1 = 8.4 Hz, J2 = 1.96 Hz), 4.93 (1H, s), 4.50 (2H, d),
3.77–3.55 (8H, m), 3.47 (5H, m), 3.28 (1H, d), 2.77 (1H, t), 1.92 (1H, m), 1.78 (1H, m), 1.63–1.50

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13
(10H, m); C-NMR (CDCl3): δ 172.0, 163.9, 163.7, 161.0, 135.4, 133.5, 133.2, 129.9, 129.0, 127.0,
73.0, 56.4, 45.6, 45.2, 44.0, 43.6, 42.6, 41.7, 30.1, 26.6, 25.4, 24.7, 24.4; ESI-MS: m/z = 532.4 [M+H]+;
HRMS (TOF): calcd for C26H35Cl2N7O [M+H]+: 532.2358, Found: 532.2356.
(R)-2-[4-(Piperidin-2-yl)carbonylpiperazino]-N-(2,4-dichlorobenzyl)-6-morpholino pyrimidin-4-amine
(7b). Compound 7b was obtained as an off-white solid (0.30 g, 55.4%) from compound 1 and morpholine
according to the procedure described for the synthesis of compound 7a. M.p. 167.8–169.5 °C;
1H-NMR (CDCl3) δ ppm: 7.39 (1H, d, J = 1.96 Hz), 7.30 (1H, d, J = 8.4 Hz), 7.20 (1H, dd, J1 = 8.4 Hz,
J2 = 1.96 Hz), 4.92 (1H, s), 4.90 (1H, brs), 4.52 (2H, d), 3.76–3.54 (12H, m), 3.44 (5H, m), 3.28 (1H,
d), 2.76 (1H, t), 1.92 (1H, m), 1.77 (1H, m), 1.63 (1H, d), 1.51–1.43 (3H, m); 13C-NMR (CDCl3):
δ 172.1, 164.1, 163.9, 160.9, 135.2, 133.5, 133.2, 129.8, 129.1, 127.0, 73.3, 66.5, 56.4, 45.6, 45.1, 44.5,
44.0, 43.5, 42.5, 41.6, 30.1, 26.6, 24.4; ESI-MS: m/z = 534.3 [M+H]+; HRMS (TOF): calcd for
C25H33Cl2N7O2 [M+H]+: 534.2146, Found: 534.2142.
3.2.3. Procedure for the Synthesis of Compounds 12a–d
2-Chloro-N-(2,4-dichlorobenzyl)-6-methylpyrimidin-4-amine (9). 2,4-Dichlorobenzylamine (7.04 g,
40.0 mmol) was dropped into a mixture of compound 8 (6.52 g, 40.0 mmol), DIEA (6.22 g,
48.0 mmol) and dichloromethane (150 mL) at room temperature. The resulting mixture was then
stirred at reflux overnight. The reaction mixture was washed with distilled water and brine
successively. The obtained organic layer was dried over sodium sulfate, filtered and concentrated in
vacuo. The residue was purified by silica gel column chromatography (hexane/ethyl acetate v/v = 5:1)
to give compound 9 (7.56 g, 62.6%) as a white solid. 1H-NMR (DMSO-d6) δ ppm: 8.27 (1H, brs), 7.64
(1H, d, J = 1.96 Hz), 7.43–7.41 (1H, dd, J1 = 8.4 Hz, J2 = 1.96 Hz), 7.34 (1H, d, J = 8.2 Hz), 6.40 (1H,
s), 4.52 (2H, s), 2.20 (3H, s); ESI-MS: m/z = 302.5 [M+H]+.
2-(4-Ethoxycarbonylpiperazino)-N-(2,4-dichlorobenzyl)-6-methylpyrimidin-4-amine (10). Compound
10 was obtained as a white solid (5.01 g, 89.4%) from compound 9 and N-ethoxycarbonylpiperidine
1
according to the procedure described for the synthesis of compound 4a. H-NMR (DMSO-d6) δ ppm:
7.60 (1H, d, J = 1.96 Hz), 7.54 (1H, brs), 7.41–7.38 (1H, dd, J1 = 8.4 Hz, J2 = 1.96 Hz), 7.34 (1H, d,
J = 8.4 Hz), 5.74 (1H, s), 4.48 (2H, s), 4.02–4.06 (2H, q), 3.58 (4H, m), 3.31 (4H, m), 2.06 (3H, s),
1.20–1.17 (3H, t); ESI-MS: m/z = 424.2 [M+H]+.
2-Piperazino-N-(2,4-dichlorobenzyl)-6-methylpyrimidin-4-amine (11). Compound 11 was obtained as
an off-white solid (2.81 g, 95.4%) from compound 10 according to the procedure described for the
synthesis of compound 5a. 1H-NMR (CDCl3) δ ppm: 7.40 (1H, d, J = 1.96 Hz), 7.27 (1H, d, J = 8.4 Hz),
7.20 (1H, dd, J1 = 8.4 Hz, J2 = 1.96 Hz), 5.60 (1H, s), 5.04 (1H, brs), 4.57 (2H, s), 3.76 (4H, m), 2.89
(4H, m), 2.19 (3H, s); ESI-MS: m/z = 352.2 [M+H]+.
(R)-2-[4-(Piperidin-2-yl)carbonylpiperazino]-N-(2,4-dichlorobenzyl)-6-methylpyrimidin-4-amine (12a).
Compound 12a was obtained as a white solid (0.49 g, 71.4%) from compound 11 and
(R)-N-piperidine-2-carboxylic acid according to the procedure described for the synthesis of compound 6d.
M.p. 82.6–84.5 °C; 1H-NMR (CDCl3) δ ppm: 7.39 (1H, d, J = 1.96 Hz), 7.27 (1H, d, J = 8.4 Hz), 7.20

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(1H, dd, J1 = 8.4 Hz, J2 = 1.96 Hz), 5.59 (1H, s), 5.01 (1H, brs), 4.57 (2H, d), 3.78–3.50 (8H, m), 3.43
(1H, m), 3.23–3.19 (1H, d), 2.73–2.67 (1H, m), 2.18 (3H, s), 1.94–1.91 (1H, d), 1.76 (1H, d), 1.61 (1H,
13
d), 1.51–1.44 (3H, m); C-NMR (CDCl3): δ 171.6, 166.1, 163.0, 161.4, 135.0, 133.6, 133.4, 129.9,
129.2, 127.1, 92.9, 55.9, 45.1, 43.9, 43.5, 42.2, 41.7, 29.7, 26.1, 24.1, 22.4; ESI-MS: m/z = 463.5
[M+H]+; HRMS (TOF): calcd for C22H28Cl2N6O [M+H]+: 463.1776, Found: 463.1774.
2-[4-(N,N-dimethylaminomethyl)carbonylpiperazino]-N-(2,4-dichlorobenzyl)-6-methyl pyrimidin-4-amine
(12b). Compound 12b was obtained as a white solid (0.28 g, 64.0%) from compound 11 and
2-(dimethylamino)acetic acid according to the procedure described for the synthesis of compound 6a.
1
M.p. 147.5–149.1 °C; H-NMR (DMSO-d6) δ ppm: 7.60 (1H, d, J = 1.96 Hz), 7.53 (1H, brs), 7.39
(1H, dd, J1 = 8.4 Hz, J2 = 1.96 Hz), 7.35 (1H, d, J = 8.4 Hz), 5.75 (1H, s), 4.50 (2H, s), 3.58 (4H, m),
3.47–3.40 (4H, m), 3.09 (2H, s), 2.18 (6H, s), 2.07 (3H, s); 13C-NMR (CDCl3): δ 168.5, 166.1, 162.9,
161.5, 135.0, 133.6, 133.4, 129.9, 129.2, 127.0, 92.8, 62.5, 45.4, 44.1, 43.6, 42.2, 41.6, 24.1; ESI-MS:
m/z = 437.4 [M+H]+; HRMS (TOF): calcd for C20H26Cl2N6O [M+H]+: 437.1618, Found: 437.1617.
2-[4-(N-methylpiperidin-4-yl)carbonylpiperazino]-N-(2,4-dichlorobenzyl)-6-methylpyrimidin-4-amine
(12c). Compound 12c was obtained as a white solid (0.35 g, 73.5%) from compound 11 and
1-methylpiperidine-4-carboxylic acid according to the procedure described for the synthesis of
compound 6a. M.p. 146.4–148.0 °C; 1H-NMR (CDCl3) δ ppm: 7.40 (1H, d, J = 1.96 Hz), 7.28 (1H, d,
J = 8.4 Hz), 7.19 (1H, dd, J1 = 8.4 Hz, J2 = 1.96 Hz), 5.60 (1H, s), 5.01 (1H, s), 4.57 (2H, d), 3.76 (4H,
m), 3.64 (2H, m), 3.49 (2H, m), 2.94 (2H, d), 2.49 (1H, m), 2.31 (3H, s), 2.19 (3H, s), 2.05 (2H, m),
1.93 (2H, m), 1.77 (2H, m); 13C-NMR (CDCl3): δ 173.4, 166.1, 162.9, 161.4, 135.0, 133.6, 133.4,
129.8, 129.1, 127.0, 93.2, 54.9, 46.1, 45.2, 44.1, 43.6, 42.2, 41.5, 37.7, 28.4, 24.1; ESI-MS:
m/z = 477.2 [M+H]+; HRMS (TOF): calcd for C23H30Cl2N6O [M+H]+: 477.1931, Found: 477.1934.
(R)-2-[4-(Tetrahydrofuran-2-yl)carbonylpiperazino]-N-(2,4-dichlorobenzyl)-6-methylpyrimidin-4-amine
(12d). Compound 12d was obtained as a white solid (0.39 g, 86.7%) from compound 11 and
(R)-tetrahydrofuran-2-carboxylic acid according to the procedure described for the synthesis of
compound 6a. M.p. 124.3–125.8 °C; 1H-NMR (DMSO-d6) δ ppm: 7.60 (1H, d, J = 1.96 Hz), 7.53 (1H,
brs), 7.39 (1H, dd, J1 = 8.4 Hz, J2 = 1.96 Hz), 7.35 (1H, d, J = 8.4 Hz), 5.75 (1H, s), 4.67 (1H, t), 4.50
(2H, s), 3.76 (2H, m), 3.61–3.43 (8H, m), 2.07 (3H, s), 2.00 (2H, m), 1.83 (2H, m); 13C-NMR (CDCl3):
δ 170.0, 166.1, 162.9, 161.4, 135.0, 133.6, 133.4, 129.9, 129.1, 127.0, 93.1, 75.8, 69.0, 45.2, 43.9, 43.5,
42.2, 41.9, 28.4, 25.6, 24.1; ESI-MS: m/z = 451.3 [M+H]+; HRMS (TOF): calcd for C21H25Cl2N5O2
[M+H]+: 450.1458, Found: 450.1453.
3.3. Chemotaxis Inhibition Assay Method
The quantitative chemotaxis assays were performed using 48-well Boyden chambers (Neutroprobe,
Bethesda, MD, USA) with polyvinylpyrrolidone-free polycarbonate filters with 5 μm pores [19,20].
The MDC (Peprotech, Rocky Hill, NJ, USA) with a final concentration of 10 ng/mL was added into
the lower wells. The L1.2 cells that were transfected with pcDI-CCR4 were suspended in assay buffer
at 3 × 106 cells/mL, incubated with various final concentrations of compounds for 30 min at 37 °C, and
then added to the upper wells. The chamber was incubated for 6 h at 37 °C in an atmosphere

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containing 5% CO2, and then the upper chambers were removed. The chemotaxis buffer in the lower
wells was then harvested and mixed with 25 μL of the luciferase-containing reagent, Cell-Titer Glo.
The number of L1.2 cells in the lower well medium was measured with a Veritas Microplate
Luminometer (Turner BioSystems, Sunnyvale, CA, USA). All samples were assayed three times. The
negative control samples and solvent control samples were defined as the cells migrating toward the
lower wells in the absence of chemokine, and as the cells migrating toward the MDC-containing lower
wells in the absence of compound in the presence of DMSO, respectively. The percentage of inhibition
was determined by the following equation: inhibition = (C − A)/(C − B) × 100%, where A indicates
the number of cells in the sample, B indicates the number of cells in the negative control sample and C
indicates the number of cells in the solvent control sample. The results are expressed as an IC50 value
(sample concentration that inhibits 50% chemotaxis) and calculated using Origin 8.0 software.
4. Conclusions
In summary, we have designed and synthesized a series of novel trisubstituted pyrimidine amide
derivatives and evaluated them for their ability to inhibit CCR4-MDC chemotaxis. Compounds 6c, 12a
and 12b showed higher or similar activity compared with the lead compound 1, with IC50 values of
0.064, 0.077 and 0.069 μM, respectively. The results from the SAR study indicated that for
maintaining the activity it was critical that the right-side contain a saturated carbonyl group with a
nitrogen atom and the left-side contain a benzyl group substituted with halogen at the 2- and 4-positions.
The α-position nitrogen atom on the right-side carbonyl group is more beneficial for maintaining the
activity than the γ-position, and replacement of the nitrogen atom with oxygen significantly reduces
the activity. Small and less polar substituents on the central pyrimidine ring are beneficial for
maintaining the activity. The results from the SAR study should prove helpful for identifying more
potent CCR4 antagonists. Further studies on the mechanism and in vivo activity of these compounds
are in progress.
Supplementary Materials
Supplementary materials can be accessed at: http://www.mdpi.com/1420-3049/19/3/3539/s1.
Acknowledgments
The work was supported by the National High Technology Research and Development program of
China (863 program), (Grant NO. 2012AA020301) and the National Science and Technology Major
project (Grant NO. 2012ZX09301003-001-002 and Grant NO. 2012ZX09301003-003).
Author Contributions
The design and synthesis of the compounds have been achieved by Libao Xu, Junhai Xiao,
Xiaohong Yang and Song Li. Spectrum analysis of the compounds has been achieved by Dan Jiang.
The experimental of chemotaxis inhibition assay has been achieved by Yang Zhang, Wenjie Dai,
Ying Wang and Lili Wang.

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3550
Conflicts of Interest
The authors declare no conflict of interest.
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Sample Availability: Samples of the compounds 6a–e, 7a, 7b and 12a–d are available from the authors.
© 2014 by the authors; licensee MDPI, Basel, Switzerland. This article is an open access article
distributed under the terms and conditions of the Creative Commons Attribution license
(http://creativecommons.org/licenses/by/3.0/).