Home Crystal structure of bis(2,4,6-trichlorophenyl) malonate, C15H6Cl6O4
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Crystal structure of bis(2,4,6-trichlorophenyl) malonate, C15H6Cl6O4

  • Shi Yun-Lian , Huang Tao , Nie Xu-Liang , Peng Da-Yong EMAIL logo , Liu Jin-Chuan and Li Bao-Tong EMAIL logo
Published/Copyright: November 30, 2018

Abstract

[C15H6Cl6O4], monoclinic, Cc (no. 9), a = 12.0980(11) Å, b = 10.0628(9) Å, c = 15.1518(14) Å, β = 104.231(1)°, V = 1788.0(3) Å3, Z = 4, Rgt(F) = 0.0214, wRref(F2) = 0.0568, T = 296(2) K.

CCDC no.: 1875000

The crystal structure is shown in the figure. Tables 1 and 2 contain details on crystal structure and measurement conditions and a list of the atoms including atomic coordinates and displacement parameters.

Table 1:

Data collection and handling.

Crystal:Colorless block
Size:0.16 × 0.14 × 0.12 mm
Wavelength:Mo Kα radiation (0.71073 Å)
μ:1.0 mm−1
Diffractometer, scan mode:Bruker Apex-II, φ and ω-scans
θmax, completeness:25.5°, >99%
N(hkl)measured, N(hkl)unique, Rint:6761, 3023, 0.016
Criterion for Iobs, N(hkl)gt:Iobs > 2 σ(Iobs), 2952
N(param)refined:227
Programs:Bruker programs [1], SHELX [2]
Table 2:

Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2).

AtomxyzUiso*/Ueq
C10.4028(2)0.7439(3)0.7211(2)0.0404(6)
C20.3300(2)0.6358(3)0.7001(2)0.0447(6)
C30.3337(3)0.5341(3)0.7616(2)0.0492(7)
H30.28420.46210.74780.059*
C40.4131(3)0.5419(3)0.8445(2)0.0488(7)
C50.4875(3)0.6471(3)0.8675(2)0.0461(7)
H50.54030.65040.92360.055*
C60.4809(2)0.7476(3)0.8043(2)0.0418(6)
C70.4609(2)0.8445(3)0.6012(2)0.0409(6)
C80.4453(3)0.9649(3)0.5412(2)0.0512(7)
H8A0.46081.04330.57940.061*
H8B0.50120.96210.50490.061*
C90.3289(2)0.9783(3)0.4783(2)0.0507(8)
C100.2370(2)1.0893(3)0.3437(2)0.0424(6)
C110.1700(2)1.1991(3)0.3461(2)0.0425(6)
C120.0793(2)1.2288(3)0.2735(2)0.0417(6)
H120.03451.30360.27470.050*
C130.0568(2)1.1451(3)0.19938(19)0.0410(6)
C140.1216(3)1.0341(3)0.1951(2)0.0463(7)
H140.10490.97850.14450.056*
C150.2121(2)1.0079(3)0.2683(2)0.0475(7)
O10.39339(17)0.8502(2)0.66100(15)0.0474(5)
O20.5245(2)0.7569(3)0.59956(17)0.0664(7)
O30.2442(2)0.9227(4)0.4817(2)0.0933(11)
O40.33483(17)1.0684(2)0.41368(16)0.0538(6)
Cl10.23312(8)0.62950(10)0.59519(6)0.0650(2)
Cl20.57314(7)0.88156(8)0.83113(6)0.0610(2)
Cl30.42004(10)0.41507(9)0.92305(7)0.0733(3)
Cl40.19913(7)1.30229(10)0.44010(6)0.0663(3)
Cl5−0.05775(7)1.18000(8)0.10804(6)0.0606(2)
Cl60.29540(9)0.86970(9)0.26502(10)0.0843(3)

Source of materials

Pyrimidinones are usually synthesized by using 2-aminopyridine and bis(2,4,6-trichlorophenyl)malonate. Based on the literature synthesis, we have improved the route. The synthesis process of bis(2,4,6-trichlorophenyl) malonate was carried out using malonic acid as starting material. Malonic acid (4 g, 38.46 mmol), oxalyl chloride (5.38 mL, 57.69 mmol) were added in DCM (50 mL); the mixtrue was stirred well for 1 h at room temperature, then we added 1 drop of DMF, and continued stirring until the mixture became clear. 2,4,6-trichlorophenol (11.3 g, 57.69 mmol) was added, the reaction solution stirred at room temperature overnight. The product was concentrated under reduced pressure. Finally, methanol (20 mL) was added until a white solid precipitated then the resulting solution was filtered under reduced pressure. The raw product (10.5 g) was recrystallied from dichloromethane. m.p: 149–152 °C. Elemental Anal. Calcd. (%) for C15H6Cl6O4 (462.90): C, 38.92; H, 1.37. Found (%): C, 38.18; H, 1.50.

Experimental details

All H atoms were included in calculated positions and refined as riding atoms, with C—H = 0.90−0.97 Å with Uiso(H) = 1.5 Ueq(C) for methyl H atoms and 1.2 Ueq(C) for all other H atoms. The Flack-Parsons parameter is 0.039(18) based on 1283 quotients [2].

Comment

Pyrimidine and pyrimidopyrimidine derivatives is an important medicine [3], and its synthesis is usually performed by using 2-aminopyridine and bis(2,4,6-trichlorophenyl)malonate [4], [5].

Nowadays, many pyrimidine and pyrimidopyrimidine derivatives are of interest in the search for new pharmaceutical candidates because they may show distinguished pharmaceutical properties, such as: antiviral, antibacterial, anti-HIV, antiallergic, and antitumoral activities [6]. Pyrimidines have a prominent pharmacophore prevailing in many heterocyclic natural products. During the past two decades, several pyrimidine derivatives were found to have widespread clinical applications including chemotherapy of AIDS.

Herein we report the synthesis and crystal structure of the intermediate of the pyrimidone synthesis [7]: bis(2,4,6-trichlorophenyl) malonate. In the molecule of the title compound (Fig.), bond lengths and angles are in the expected ranges for malonates [8, 9] . Two aryl rings were bound to the both sides of malonic acid group. The dihedral angle between the benzene rings is 67.8°. Further, the dihedral angle between the central CH2—C(O)—O segment and the phenyl ring is 83.8°.

Acknowledgement

X-ray data were collected at Instrumental Analysis Center Nanchang Hangkong University, Nanchang, 330063, People’s Republic of China.

This research has been supported by the China National Key R&D Program during the 13th Five-year Plan Period (Grant No.2017YFD0301604) the National Natural Science Foundation of China (Grant No. 21562022), the Research Foundation of Educational Department of Jiangxi Province [GJJ170274,160382] and the Research Foundation of company [9131206709].

References

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Received: 2018-09-25
Accepted: 2018-10-24
Published Online: 2018-11-30
Published in Print: 2019-03-26

©2019 Shi Yun-Lian et al., published by De Gruyter, Berlin/Boston

This work is licensed under the Creative Commons Attribution 4.0 Public License.

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