Home Crystal structure of (E)-6-(4-methylpiperazin-1-yl)-2-(4-(trifluoromethyl)benzylidene)-3, 4-dihydronaphthalen-1(2H)-one, C23H23F3N2O
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Crystal structure of (E)-6-(4-methylpiperazin-1-yl)-2-(4-(trifluoromethyl)benzylidene)-3, 4-dihydronaphthalen-1(2H)-one, C23H23F3N2O

  • De-Li Xia , Rui Xu , Yu-Hao Miao , Yan Zhang , Yu-Xin Pan , Hong-Ao Chen , Lu Yu , Qing-Guo Meng and Gui-Ge Hou ORCID logo EMAIL logo
Published/Copyright: April 18, 2025

Abstract

C23H23F3N2O, monoclinic, Cc (no. 14), a = 19.6605(5) Å, b = 15.1474(3) Å, c = 6.4603(1) Å, β = 96.704(2)°, V = 1910.76(7) Å3, Z = 4, R gt (F) = 0.0567, wR ref (F2) = 0.1746, T = 293 K.

CCDC no.: 2418113

The crystal structure is shown in the Figure 1. Displacement ellipsoids are drawn at the 50 % probability level. There is a drug molecule.

Table 1 contains details on crystal structure and measurement conditions.

Table 1:

Data collection and handling.

Crystal: Colourless block
Size: 0.16 × 0.13 × 0.12 mm
Wavelength: CuKα radiation (1.54178 Å)
μ: 0.89 mm−1
Diffractometer, scan mode: Rigaku, φ and ω scans
θmax, completeness: 74.3°, 100 %
N(hkl)measured, N(hkl)unique, Rint: 9,625, 3,779, 0.031
Criterion for Iobs, N(hkl)gt: Iobs > 2 σ(Iobs), 3,421
N(param)refined: 264
Programs: Rigaku, 1 SHELX. 2 , 3

The list of the atoms including atomic coordinates and displacement parameters can be found in the cif-file attached to this article.

1 Source of material

Based on the literature synthesis, 4 , 5 N-methylpiperazine (16.02 g, 0.16 mol), potassium carbonate (27.80 g, 0.20 mol) and N,N-dimethylformamide (6 mL) were added into a 250 mL round flask. The mixture was stirred and reacted under an oil bath at 353 K for 4 h. After that, the temperature was raised to 383 K, and 6-fluoro-1-tetralone (3.35 g, 0.02 mol) was added. The reaction was continued for another 5 h. After filtration and spin evaporation, the residue was purified on a silica gel column chromatography (dichloromethane: methanol = 30:1, v: v) to afford the intermediate. Next, the intermediate (0.24 g, 1.0 mmol) and 4-(trifluoromethyl) benzaldehyde (0.34 g, 2.0 mmol) were dissolved in 3 mL methanol. A 25 % sodium hydroxide solution (3 mL) was used as a catalyst. The system was reacted on ice for 10 min and then stirred at room temperature for 2 days. The reaction was stopped when it was monitored by thin-layer chromatography (TLC) that the intermediate had been completely consumed. Then the precipitate obtained by suction filtration was rinsed with 50 % methanol. After drying, a dichloromethane and methanol solution (4 mL, 1:1, v: v) of the powder was kept at room temperature to obtain clear light colourless crystals after a few days.

2 Experimental details

The H atoms were placed in idealized positions and treated as riding on their parent atoms, with d (C–H) = 0.96 Å (methyl), Uiso(H) = 1.5Ueq(C), and d(C–H) = 0.97 Å (methylene), Uiso(H) = 1.2Ueq(C), and d(C–H) = 0.93 Å (aromatic), Uiso(H) = 1.2Ueq(C).

3 Comment

Previous studies revealed that 3,4-dihydronaphthalene-1(2H)-one compounds have excellent anti-inflammatory and anti-tumor activity. 6 , 7 The aldehyde group is drawn into the compound to obtain α,Î2-unsaturated ketone by condensation, which increases the active site of the compound. 8 Fluorine is the most electronegative element and its inclusion in a molecule has a very strong effect on the acidity or basicity of proximal functional groups. 9 , 10 In addition, some research indicates that the introduction of a nitrogen-containing heterocycle at the end of the compound may reduce the toxicity and increase the biological activity of the compound. 11 , 12 Therefore, we introduced a trifluoromethyl group at the C(15) position and a N-methylpiperazine substituent at C(6) position to obtain the target compound, (E)-6-(4-methylpiperazin-1-yl)-2-(4- (trifluoromethyl)benzylidene)-3,4-dihydronaphthalen-1(2H)-one.

Single crystal structure analysis shows that there is only one molecule in the asymmetric unit of the title compound (cf. Figure 1). The bond lengths and bond angles are within the normal range. The parent nucleus of the molecule is 3,4-dihydronaphthalene-1(2H)-one. The α, Î2-unsaturated ketone was obtained at the C(2) position through the Claisen–Schmidt condensation reaction. 13 The bond lengths of O(1) = C(1) and C(2) = C(11) are 1.229(2) Å and 1.343(2) Å, respectively. The torsion angle of O(1) = C(1)–C(2) = C(11) is about −3.2(2) and the torsion angle of C(1)–C(2) = C(11)–C(12) is about 172.26(16). Trifluoromethyl is substituted as an electron-withdrawing group at the C(15) position. 14 The bond length of C(15)–C(18) is 1.493(3) Å. The 3,4-dihydronaphthalene-1(2H)-one and the benzene ring connected to the trifluoromethyl group are not coplanar, and the dihedral angle is about 49.28(3). There is a N-methylpiperazine substitution at the C(6) position. The bond length of N(2)–C(23) is 1.457(2) Å. The torsion angle of N(1)–C(19)–C(20)–N(2) is about 56.70(19), and the torsion angle of N(1)–C(21)–C(22)–N(2) is about −57.2(2). The dihedral angle between the 3,4-dihydronaphthalene-1(2H)-one and the N-methylpiperazine is about 17.854(69). The N atom in N-methylpiperazine has a lone pair of electrons and can easily act as a hydrogen-bond acceptor or form hydrogen-bond interactions. The N-methylpiperazine ring adopts a “chair” configuration. 15 Overall, the molecule has a linear structure. 16


Corresponding author: Gui-Ge Hou, School of Pharmacy, Binzhou Medical University, Yantai, 264003, P.R. China, E-mail:

Acknowledgments

This work was supported by Shandong Laboratory Program (No. SYS202205), Shandong Provincial Natural Science Foundation (Nos. ZR2022MH159 and ZR2023MH190) and Shandong Province Science and Technology-based Small and Medium-sized Enterprises Innovation Capacity Enhancement Project (No. 2023TSGC0870).

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Received: 2025-02-06
Accepted: 2025-03-31
Published Online: 2025-04-18
Published in Print: 2025-06-26

© 2025 the author(s), published by De Gruyter, Berlin/Boston

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

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