Home Physical Sciences Crystal structure of 2-(8a-methyl-5-oxo-hexahydroimidazo [1,2-a]pyridin-1(5H)-yl)-2-oxoethyl acetate, C12H18N2O4
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Crystal structure of 2-(8a-methyl-5-oxo-hexahydroimidazo [1,2-a]pyridin-1(5H)-yl)-2-oxoethyl acetate, C12H18N2O4

  • Fei Ye , Juan-Juan Li , Zhao-Zheng Xu and Ying Fu EMAIL logo
Published/Copyright: July 21, 2017

Abstract

C12H18N2O4, orthorhombic, P212121 (no. 19), a = 7.1591(14) Å, b = 10.236(2) Å, c = 16.713(3) Å, V = 1224.7(4) Å3, Z = 4, Rgt(F) = 0.0333, wRref(F2) = 0.0810, T = 293(2) K.

CCDC no.:: 1532367

The crystal structure is shown in the figure. Table 1 contains details on crystal structure and measurement conditions. Table 2 lists the atoms with their coordinates and displacement parameters.

Table 1

Data collection and handling.

Crystal:Colourless block
Size:0.5 × 0.37 × 0.29 mm
Wavelength:Mo Kα radiation (0.71073 Å)
μ:1.0 cm−1
Diffractometer, scan mode:Xcalibur Eos, ω
2θmax, completeness:55.2°, >98%
N(hkl)measured, N(hkl)unique, Rint:11509, 2762, 0.030
Criterion for Iobs, N(hkl)gt:Iobs > 2 σ(Iobs), 2578
N(param)refined:165
Programs:CrysAlisPRO [1], SHELX [2], DIAMOND [3]
Table 2

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

AtomxyzUiso*/Ueq
C10.53972(19)0.27779(13)0.13868(8)0.0186(3)
C20.70264(19)0.22773(14)0.09026(9)0.0213(3)
H2A0.66980.23280.03400.026*
H2B0.72090.13620.10310.026*
C30.8867(2)0.29834(15)0.10231(8)0.0212(3)
H3A0.88800.37770.07060.025*
H3B0.98860.24320.08430.025*
C40.91409(18)0.33215(14)0.19019(8)0.0198(3)
H4A0.91420.25270.22190.024*
H4B1.03370.37510.19740.024*
C50.75837(19)0.42157(13)0.21847(7)0.0163(3)
C60.7778(2)0.56147(14)0.18699(9)0.0253(3)
H6A0.78040.56030.12960.038*
H6B0.89150.59910.20680.038*
H6C0.67350.61270.20490.038*
C70.54488(19)0.40630(14)0.33291(8)0.0210(3)
H7A0.50570.47700.36770.025*
H7B0.52930.32400.36090.025*
C80.43522(19)0.40735(15)0.25495(8)0.0216(3)
H8A0.33200.34600.25670.026*
H8B0.38730.49390.24320.026*
C90.88080(19)0.46000(13)0.35571(8)0.0179(3)
C100.8241(2)0.47257(14)0.44338(8)0.0192(3)
H10A0.73200.54140.44890.023*
H10B0.76780.39150.46120.023*
C111.0940(2)0.39984(14)0.50945(8)0.0219(3)
C121.2563(2)0.44058(16)0.56010(10)0.0302(3)
H12A1.25790.38970.60830.045*
H12B1.24470.53150.57330.045*
H12C1.37030.42670.53110.045*
N10.57506(15)0.36746(11)0.19624(7)0.0183(2)
N20.73955(16)0.42411(11)0.30687(7)0.0180(2)
O10.38063(15)0.23619(11)0.12753(7)0.0279(3)
O21.03976(14)0.48316(11)0.33279(6)0.0245(2)
O30.98281(13)0.50183(9)0.49238(6)0.0201(2)
O41.06353(17)0.29059(11)0.48714(8)0.0377(3)

Source of materials

Ethyl 4-acetylbutyrate (0.05 mol) and ethylenediamine (0.14 mol) were mixed with 25 mL EtOH, refluxed for 8 h, and then the solvent was removed via vacuum distillation. The intermediate 5-methyl-9-oxa-1,4-diazabicyclo[3.4.0]nonane was purified by column chromatography on silica gel eluting with CH2Cl2 and EtOH (6:1). (Et)3N (1.72 g, 0.017 mol) was added to the intermediate (0.007 mol) in THF (30 mL) at 0–5°C. Acetoxyacetyl chloride (0.01 mol) was added dropwise to the mixture. The reaction was quenched with water. The solution was washed with sat. NH4Cl (aq), sat. Na2CO3 (aq), and water. The organic phase was dried over anhydrous MgSO4. After removal of the solvent, the products were crystallized from EtOH and light petroleum as a white solid with 52.1% yield.

Experimental details

The C—H atoms were constrained to an ideal geometry, with C—H distances of 0.96–0.97 Å. The Uiso values of the hydrogen atoms of methyl groups were set to 1.5Ueq(Cmethyl) and the Uiso values of all other hydrogen atoms were set to 1.2Ueq(C).

Discussion

Diazabicyclo derivatives are widely used as biological active materials. They were also used as anticancer agents, antibiotics, antibacterial agents, and so on [4], [5], [6], [7]. Moreover, they also acted as a useful intermediate in the synthesis of compounds with special properties [8, 9] . Dichloroacetyl diazabicyclo derivatives were reported as novel herbicide safener protecting crops from injury by chlorine acetamide herbicides, sulfonylurea herbicides, and imidazolinone herbicides since BASF employed 5-dichloroacetyl-3,3,6-trimethyl-9-oxo-1,5-diazabicyclo[4.3.0] nonane as safeners which increased the toleration of crops to acetanilides herbicides [10], [11], [12].

The title compound is a bicyclic molecule with N1 and C5 as the bridge carbon atoms. The dihedral angle between the plane I (C1/C2/C3/C4/C5/N1) and the plane II (N1/C5/N2/C7/C8) is 29.5°. Plane I adapted half-chair conformation. Plane II is in an envelope conformation with C5 forming the flap. The bond distances of C1—N1 and C9—N2 [1.3535(18) Å and 1.3505(17) Å, respectively] are shorter than the normal C—N distance, which indicates the existence of a p-π conjunction effect. In the crystal structure, molecules are linked by intermolecular C—H⋯O hydrogen bonds and van der Waals forces.

Acknowledgement

The authors gratefully acknowledge support by the National Nature Science Foundation of China (31572042) and the Research Science Foundation in Technology Innovation of Harbin (2015RAYXJ010).

References

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Received: 2017-2-24
Accepted: 2017-7-4
Published Online: 2017-7-21
Published in Print: 2017-9-26

©2017 Fei Ye et al., published by De Gruyter, Berlin/Boston

This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 3.0 License.

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