Home Physical Sciences Crystal structure of (E)-4-(4-(1H-pyrrol-1-yl)benzylidene)-6,8-dimethoxy-3,4-dihydrobenzo[(b)]oxepin-5(2H)-one, C23H21NO4
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Crystal structure of (E)-4-(4-(1H-pyrrol-1-yl)benzylidene)-6,8-dimethoxy-3,4-dihydrobenzo[(b)]oxepin-5(2H)-one, C23H21NO4

  • Yu-Hao Miao , Mu-Chen Jiang , De-Li Xia , Wen-Xin Zhu , Yue-Xia Ding and Gui-Ge Hou ORCID logo EMAIL logo
Published/Copyright: September 23, 2025

Abstract

C23H21NO4, monoclinic, P21/c (no. 14), a = 18.4694(3) Å, b = 6.9105(1) Å, c = 14.9464(3) Å, β = 93.749(2)°, V = 1903.57(6) Å3, Z = 4, R gt (F) = 0.0426(3375), wR ref (F2) = 0.1183(3743), T = 293 K.

CCDC no.: 2484893

The molecular structure is shown in the figure. Table 1 contains the crystallographic data and the list of the atoms including atomic coordinates and displacement parameters can be found in the cif-file attached to this article.

Table 1:

Data collection and handling.

Crystal: Clear light colourless block
Size: 0.15 × 0.13 × 0.11 mm
Wavelength: Cu Kα radiation (1.54178 Å)
μ: 0.73 mm−1
Diffractometer, scan mode: Rigaku Synergy, ω scan
θmax, completeness: 74.9°, 99 %
N(hkl)measured, N(hkl)unique, Rint: 11441, 3743, 0.015
Criterion for Iobs, N(hkl)gt: Iobs > 2 σ(Iobs), 3375
N(param)refined: 255
Programs: Rigaku, 1 SHELX 2 , 3

1 Source of material

Based on the literature synthesis, 4 , 5 1H-pyrrole (10.73 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 4-fluorobenzaldehyde (2.5 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 (0.86 g, 5.0 mmol) and 6,8-dimethoxy-3,4-dihydrobenzo[(b)]oxepin-5(2H)-one (1.11 g, 5.0 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 30 min. The reaction was stopped when it was monitored by thin-layer chromatography (TLC) that the intermediate had been completely consumed. The precipitate obtained by suction filtration was rinsed with 50 % methanol. The precipitate was collected and recrystallized from a dichloromethane and methanol solution (10 mL, 1:1, v:v) at room temperature to gain clear light yellow block crystals after three 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-dihydrobenzo[(b)]oxepin-5(2H)-one compounds have excellent anti-inflammatory properties. 6 , 7 It has been demonstrated that biological activity can be increased with the aid of introducing another pharmacophore, α,β-unsaturated ketone. 8 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. 9 , 10 Therefore, a 1H-pyrrole substituent at the C(15) position was introduced to obtain the title compound.

The single-crystal structure analysis reveals that the title compound crystallizes in the monoclinic space group, with one molecule in the asymmetric unit (cf. the figure). The bond lengths and bond angles are within the normal range. In this seven-membered oxazepine ring, dihedral angles are C(9)–C(1)–C(2)–C(3), C(1)–C(2)–C(3)–C(4), C(2)–C(3)–C(4)–O(1), and C(3)–C(4)–O(1)–C(10) are 4.09(17)°, −72.44(14)°, 43.21(16)° and 49.42(16)°, respectively. At the C(2) position, the α,β-unsaturated ketone was obtained through the Claisen–Schmidt condensation reaction. 11 , 12 The bond lengths of O(2)=C(1) is 1.2172(16) Å, while the bond length of C(2)=C(11) is 1.3381(18) Å. The torsion angle of O(2)=C(1)–C(2)=C(11) is about 2.97(19)°, while the torsion angle of C(1)–C(2)=C(11)–C(12) is about 177.57(12)°. There is a 1H-pyrrole substitution at the C(15) position. The bond length of C(15)–N(1) is 1.4192(15) Å. The torsion angle of C(18)–N(1)–C(15) is about 125.92(12)°, the torsion angle of C(21)–N(1)–C(18) is about 108.15(12)° and the torsion angle of C(21)–N(1)–C(15) is about 125.80(11)°. Because of the structural characteristics and the substituent effect, there is a large dihedral angle between the central parent nucleus and the substituted 1H-pyrrole, with the dihedral angle of about 34.01(3)°. Overall, the title compound has a linear structure. 13 This twisting and linear structure may increase the possibility of interaction with bioactive molecules. 14 , 15


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

  1. Research funding: This work was supported by Shandong Provincial Natural Science Foundation (No. ZR2023MH190) and College Students’ innovation and entrepreneurship training program (Discovery of benzoxazepines and the mechanism of action of targeted intervention in the cGAS–STING pathway for the treatment of neuroinflammation, by Mu-Chen Jiang, No. X202510440639).

References

1. Rigaku OD. CrysAlisPRO; Rigaku Oxford Diffraction Ltd: Yarnton, Oxfordshire, England, 2017.Search in Google Scholar

2. Sheldrick, G. M. A Short History of Shelx. Acta Crystallogr. 2008, A64, 112–122; https://doi.org/10.1107/s0108767307043930.Search in Google Scholar PubMed

3. Sheldrick, G. M. Crystal Structure Refinement with Shelxl. Acta Crystallogr. 2015, C71, 3–8; https://doi.org/10.1107/s2053229614024218.Search in Google Scholar

4. Luan, M. Z.; Zhang, X. F.; Yang, Y.; Meng, Q. G.; Hou, G. G. Anti-inflammatory Activity of Fluorine-Substituted Benzo[h]quinazoline-2-Amine Derivatives as NF-κB Inhibitors. Bioorg. Chem. 2023, 132, 106360; https://doi.org/10.1016/j.bioorg.2023.106360.Search in Google Scholar PubMed

5. Zhang, X. F.; Luan, M. Z.; Yan, W. B.; Zhao, F. L.; Hou, Y.; Hou, G. G.; Meng, Q. G. Anti-neuroinflammatory Effects of Novel 5,6-Dihydrobenzo[h]Quinazolin-2-Amine Derivatives in Lipopolysaccharide-Stimulated BV2 Microglial Cells. Eur. J. Med. Chem. 2022, 235, 114322; https://doi.org/10.1016/j.ejmech.2022.114322.Search in Google Scholar PubMed

6. Gao, C. L.; Hou, G. G.; Liu, J.; Ru, T.; Xu, Y. Z.; Zhao, S. Y.; Ye, H.; Zhang, L. Y.; Chen, K. X.; Guo, Y. W.; Pang, T.; Li, X. W. Synthesis and Target Identification of Benzoxepane Derivatives as Potential Anti-neuroinflammatory Agents for Ischemic Stroke. Angew. Chem., Int. Ed. 2020, 59, 2429–2439; https://doi.org/10.1002/anie.201912489.Search in Google Scholar PubMed

7. Li, N.; Yao, B. R.; Wang, C. H.; Meng, Q. G.; Hou, G. G. Synthesis, Crystal Structure and Activity Evaluation of Novel 3,4-Dihydro-1-Benzoxepin-5(2H)-One Derivatives as Protein-Tyrosine Kinase (PTK) Inhibitors. Acta Crystallogr. 2017, C73, 1003–1009; https://doi.org/10.1107/s2053229617015145.Search in Google Scholar

8. Yang, Y.; Gao, Z. F.; Hou, G. G.; Meng, Q. G.; Hou, Y. Discovery of Anti-neuroinflammatory Agents from 1,4,5,6-Tetrahydrobenzo[2,3]oxepino[4,5-D]pyrimidin-2-Amine Derivatives by Regulating Microglia Polarization. Eur. J. Med. Chem. 2023, 259, 115688; https://doi.org/10.1016/j.ejmech.2023.115688.Search in Google Scholar PubMed

9. Zhou, G.; Zorn, N.; Ting, P.; Aslanian, R.; Lin, M.; Cook, J.; Lachowicz, J.; Lin, A.; Smith, M.; Hwa, J.; van Heek, M.; Walker, S. Development of Novel Benzomorpholine Class of Diacylglycerol Acyltransferase I Inhibitors. ACS Med. Chem. Lett. 2014, 5 (5), 544–549; https://doi.org/10.1021/ml400527n.Search in Google Scholar PubMed PubMed Central

10. Girase, P. S.; Dhawan, S.; Kumar, V.; Shinde, S. R.; Palkar, M. B.; Karpoormath, R. An Appraisal of Anti-mycobacterial Activity with Structure-Activity Relationship of Piperazine and Its Analogues: A Review. Eur. J. Med. Chem. 2021, 210, 112967; https://doi.org/10.1016/j.ejmech.2020.112967.Search in Google Scholar PubMed

11. Chen, Y.; Wang, J. P.; Wang, M. D.; Yu, W. X.; Cui, Y. T.; Gao, H. X.; Hou, G. G.; Ren, Y. Crystal Structure of (E)-2-(4-(1H-Imidazol-1-yl)Benzylidene)-7-Fluoro-3,4-Dihydronaphthalen-1(2h)-One, C20H15FN2O. Z. Kristallogr. NCS. 2025, 240 (1), 19–21; https://doi.org/10.1515/ncrs-2024-0294.Search in Google Scholar

12. Xia, D.-L.; Wang, J. P.; Yu, W. X.; Wang, M. D.; Gao, H. X.; Cui, Y. T.; Hou, G. G. Crystal Structure of (E)-6,8-Dimethoxy-4-(4-Morpholinobenzylidene)-3,4-Dihydro-1-Benzoxepin-5(2h)-One, C23H25NO5. Z. Kristallogr. NCS 2024, 239, 1133–1136; https://doi.org/10.1515/ncrs-2024-0329.Search in Google Scholar

13. Yu, L.; Wang, J. P.; Wang, M. D.; Yu, W. X.; Cui, Y. T.; Gao, H. X.; Liu, Y. J.; Hou, G. G. Crystal Structure of (E)-6-(4-Ethylpiperazin-1-yl)-2-(3-Fluorobenzylidene)-3,4-Dihydronaphthalen-1(2H)-One, C23H25FN2O. Z. Kristallogr. NCS 2024, 239 (3), 515–517; https://doi.org/10.1515/ncrs-2024-0066.Search in Google Scholar

14. Sun, Y.; Zhou, Y. Q.; Liu, Y. K.; Zhang, H. Q.; Hou, G. G.; Meng, Q. G.; Hou, Y. Potential Anti-neuroinflammatory NF-κB Inhibitors Based on 3,4-Dihydronaphthalen-1(2H)-One Derivatives. J. Enzym. Inhib. Med. Chem. 2020, 35, 1631–1640; https://doi.org/10.1080/14756366.2020.1804899.Search in Google Scholar PubMed PubMed Central

15. Yu, L.; Xia, D. L.; Chen, Y.; Miao, Y. H.; Xu, R.; Pan, Y. X.; Li, Y. L.; Li, W. X.; Hou, Y.; Liu, Y. J.; Hou, G. G.; Zhao, J. B.; Zhang, L. Novel 3,4-Dihydronaphthalen-1(2H)-One Derivatives Promote Apoptosis and Inhibit Migration of Hepatocellularcarcinoma Cells via Inhibition of NF-κB and MAPK Signaling Pathways. Eur. J. Med. Chem. 2025, 296, 117898; https://doi.org/10.1016/j.ejmech.2025.117898.Search in Google Scholar PubMed

Received: 2025-08-02
Accepted: 2025-09-04
Published Online: 2025-09-23
Published in Print: 2025-12-17

© 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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