Literature DB >> 22719690

1-[(6-Chloro-pyridin-3-yl)meth-yl]-imidazolidin-2-one.

Rajni Kant, Vivek K Gupta, Kamini Kapoor, Chetan S Shripanavar, Kaushik Banerjee.   

Abstract

In the title mol-ecule, C(9)H(10)ClN(3)O, the dihedral angle between the pyridine ring and imidazoline ring mean plane [maximum deviation = 0.031-(3) Å] is 76.2 (1)°. In the crystal, N-H⋯O hydrogen bonds link pairs of mol-ecules to form inversion dimers. In addition, weak C-H⋯N hydrogen bonds and π-π stacking inter-actions between pyridine rings [centroid-centroid distance = 3.977 (2) Å] are observed.

Entities:  

Year:  2012        PMID: 22719690      PMCID: PMC3379492          DOI: 10.1107/S1600536812023537

Source DB:  PubMed          Journal:  Acta Crystallogr Sect E Struct Rep Online        ISSN: 1600-5368


Related literature

For the background to the insecticidal applications of imidacloprid (N-{1-[(6-chloro-3-pyrid­yl)meth­yl]-4,5-dihydro­imidazol-2-yl}nitramide), see: Samaritoni et al. (2003 ▶); Suchail et al. (2001 ▶, 2004 ▶); Schulz-Jander & Casida (2002 ▶); Kagabu et al. (2007 ▶); Pandey et al. (2009 ▶). For related structures, see: Kapoor et al. (2011 ▶, 2012 ▶); Kant et al. (2012 ▶).

Experimental

Crystal data

C9H10ClN3O M = 211.65 Triclinic, a = 5.9864 (3) Å b = 7.4724 (5) Å c = 11.0235 (8) Å α = 83.103 (6)° β = 80.040 (5)° γ = 80.020 (5)° V = 476.26 (5) Å3 Z = 2 Mo Kα radiation μ = 0.37 mm−1 T = 293 K 0.3 × 0.2 × 0.1 mm

Data collection

Oxford Diffraction Xcalibur Sapphire3 diffractometer Absorption correction: multi-scan (CrysAlis PRO; Oxford Diffraction, 2010 ▶) T min = 0.835, T max = 1.000 6991 measured reflections 1876 independent reflections 1127 reflections with I > 2σ(I) R int = 0.053

Refinement

R[F 2 > 2σ(F 2)] = 0.068 wR(F 2) = 0.205 S = 0.98 1876 reflections 131 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.60 e Å−3 Δρmin = −0.26 e Å−3 Data collection: CrysAlis PRO (Oxford Diffraction, 2010 ▶); cell refinement: CrysAlis PRO; data reduction: CrysAlis PRO; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 (Farrugia, 1997 ▶); software used to prepare material for publication: PLATON (Spek, 2009 ▶). Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536812023537/lh5478sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812023537/lh5478Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536812023537/lh5478Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C9H10ClN3OZ = 2
Mr = 211.65F(000) = 220
Triclinic, P1Dx = 1.476 Mg m3
Hall symbol: -P 1Melting point: 416 K
a = 5.9864 (3) ÅMo Kα radiation, λ = 0.71073 Å
b = 7.4724 (5) ÅCell parameters from 2653 reflections
c = 11.0235 (8) Åθ = 3.5–28.9°
α = 83.103 (6)°µ = 0.37 mm1
β = 80.040 (5)°T = 293 K
γ = 80.020 (5)°Block, white
V = 476.26 (5) Å30.3 × 0.2 × 0.1 mm
Oxford Diffraction Xcalibur Sapphire3 diffractometer1876 independent reflections
Radiation source: fine-focus sealed tube1127 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.053
Detector resolution: 16.1049 pixels mm-1θmax = 26.0°, θmin = 3.5°
ω scansh = −7→7
Absorption correction: multi-scan (CrysAlis PRO; Oxford Diffraction, 2010)k = −9→9
Tmin = 0.835, Tmax = 1.000l = −13→13
6991 measured reflections
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.068Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.205H atoms treated by a mixture of independent and constrained refinement
S = 0.98w = 1/[σ2(Fo2) + (0.1095P)2] where P = (Fo2 + 2Fc2)/3
1876 reflections(Δ/σ)max = 0.001
131 parametersΔρmax = 0.60 e Å3
0 restraintsΔρmin = −0.26 e Å3
Experimental. CrysAlis PRO, Oxford Diffraction Ltd., Version 1.171.34.40 (release 27–08-2010 CrysAlis171. NET) (compiled Aug 27 2010,11:50:40) Empirical absorption correction using spherical harmonics, implemented in SCALE3 ABSPACK scaling algorithm.
Geometry. All e.s.d.'s (except the e.s.d. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell e.s.d.'s are taken into account individually in the estimation of e.s.d.'s in distances, angles and torsion angles; correlations between e.s.d.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell e.s.d.'s is used for estimating e.s.d.'s involving l.s. planes.
Refinement. Refinement of F2 against ALL reflections. The weighted R-factor wR and goodness of fit S are based on F2, conventional R-factors R are based on F, with F set to zero for negative F2. The threshold expression of F2 > σ(F2) is used only for calculating R-factors(gt) etc. and is not relevant to the choice of reflections for refinement. R-factors based on F2 are statistically about twice as large as those based on F, and R- factors based on ALL data will be even larger.
xyzUiso*/Ueq
Cl10.4849 (2)0.45046 (14)−0.23011 (9)0.0729 (5)
N10.5214 (5)0.2659 (4)−0.0175 (3)0.0489 (8)
C40.0675 (6)0.2139 (5)0.0355 (4)0.0542 (10)
H4−0.08580.19790.05280.065*
C30.2141 (5)0.1420 (4)0.1179 (3)0.0410 (8)
C20.4371 (5)0.1719 (5)0.0871 (3)0.0432 (8)
H20.53740.12370.14270.052*
C50.1490 (6)0.3105 (5)−0.0738 (3)0.0496 (9)
H50.05350.3601−0.13160.059*
C60.3766 (6)0.3299 (4)−0.0931 (3)0.0436 (8)
C70.1389 (6)0.0288 (5)0.2357 (4)0.0528 (9)
H7A0.0729−0.07170.21580.063*
H7B0.2721−0.02240.27470.063*
N8−0.0276 (5)0.1334 (4)0.3217 (3)0.0539 (8)
C90.0273 (6)0.2816 (5)0.3778 (3)0.0489 (9)
H9A0.04010.38770.31850.059*
H9B0.17030.24600.41080.059*
C10−0.1757 (6)0.3212 (5)0.4818 (4)0.0556 (10)
H10A−0.12500.30540.56190.067*
H10B−0.25750.44420.46880.067*
N11−0.3167 (6)0.1876 (5)0.4724 (3)0.0645 (10)
C12−0.2227 (6)0.0748 (5)0.3831 (3)0.0456 (9)
O12−0.2977 (4)−0.0596 (4)0.3591 (2)0.0627 (8)
H11−0.435 (8)0.156 (6)0.518 (4)0.091 (15)*
U11U22U33U12U13U23
Cl10.0942 (9)0.0714 (8)0.0479 (7)−0.0244 (6)0.0061 (6)0.0070 (5)
N10.0365 (16)0.0625 (18)0.0457 (19)−0.0145 (13)0.0013 (14)0.0024 (15)
C40.0285 (17)0.068 (2)0.068 (3)−0.0144 (16)−0.0060 (17)−0.005 (2)
C30.0331 (17)0.0449 (17)0.044 (2)−0.0102 (14)0.0038 (15)−0.0095 (15)
C20.0330 (17)0.056 (2)0.040 (2)−0.0110 (14)−0.0023 (15)−0.0025 (16)
C50.043 (2)0.058 (2)0.048 (2)−0.0045 (16)−0.0123 (17)−0.0026 (18)
C60.048 (2)0.0440 (18)0.036 (2)−0.0116 (15)0.0023 (16)−0.0025 (15)
C70.048 (2)0.052 (2)0.053 (2)−0.0131 (16)0.0096 (18)−0.0017 (18)
N80.0459 (16)0.0637 (19)0.051 (2)−0.0266 (14)0.0192 (14)−0.0135 (16)
C90.051 (2)0.052 (2)0.043 (2)−0.0176 (16)0.0032 (17)−0.0041 (17)
C100.060 (2)0.063 (2)0.040 (2)−0.0163 (18)0.0084 (18)−0.0049 (18)
N110.054 (2)0.090 (2)0.052 (2)−0.0363 (19)0.0183 (17)−0.0188 (19)
C120.0399 (18)0.064 (2)0.034 (2)−0.0194 (16)−0.0016 (15)0.0038 (17)
O120.0553 (16)0.0826 (19)0.0558 (18)−0.0392 (14)0.0077 (13)−0.0107 (15)
Cl1—C61.746 (3)C7—H7B0.9700
N1—C61.298 (4)N8—C121.359 (4)
N1—C21.344 (4)N8—C91.442 (4)
C4—C31.371 (5)C9—C101.534 (5)
C4—C51.386 (5)C9—H9A0.9700
C4—H40.9300C9—H9B0.9700
C3—C21.370 (4)C10—N111.437 (5)
C3—C71.507 (5)C10—H10A0.9700
C2—H20.9300C10—H10B0.9700
C5—C61.373 (5)N11—C121.357 (5)
C5—H50.9300N11—H110.85 (4)
C7—N81.444 (5)C12—O121.241 (4)
C7—H7A0.9700
C6—N1—C2115.8 (3)C12—N8—C9111.8 (3)
C3—C4—C5119.6 (3)C12—N8—C7123.6 (3)
C3—C4—H4120.2C9—N8—C7122.2 (3)
C5—C4—H4120.2N8—C9—C10103.9 (3)
C2—C3—C4117.2 (3)N8—C9—H9A111.0
C2—C3—C7120.5 (3)C10—C9—H9A111.0
C4—C3—C7122.3 (3)N8—C9—H9B111.0
N1—C2—C3124.7 (3)C10—C9—H9B111.0
N1—C2—H2117.6H9A—C9—H9B109.0
C3—C2—H2117.6N11—C10—C9102.9 (3)
C6—C5—C4117.1 (3)N11—C10—H10A111.2
C6—C5—H5121.4C9—C10—H10A111.2
C4—C5—H5121.4N11—C10—H10B111.2
N1—C6—C5125.5 (3)C9—C10—H10B111.2
N1—C6—Cl1116.2 (3)H10A—C10—H10B109.1
C5—C6—Cl1118.3 (3)C12—N11—C10112.8 (3)
N8—C7—C3112.5 (3)C12—N11—H11114 (3)
N8—C7—H7A109.1C10—N11—H11133 (3)
C3—C7—H7A109.1O12—C12—N11127.2 (3)
N8—C7—H7B109.1O12—C12—N8124.5 (3)
C3—C7—H7B109.1N11—C12—N8108.3 (3)
H7A—C7—H7B107.8
C5—C4—C3—C20.6 (5)C3—C7—N8—C12134.0 (3)
C5—C4—C3—C7−177.3 (3)C3—C7—N8—C9−64.8 (4)
C6—N1—C2—C3−0.5 (5)C12—N8—C9—C10−4.1 (4)
C4—C3—C2—N1−0.1 (5)C7—N8—C9—C10−167.3 (3)
C7—C3—C2—N1177.8 (3)N8—C9—C10—N111.1 (4)
C3—C4—C5—C6−0.4 (5)C9—C10—N11—C122.2 (4)
C2—N1—C6—C50.6 (5)C10—N11—C12—O12175.2 (4)
C2—N1—C6—Cl1−179.4 (2)C10—N11—C12—N8−4.9 (4)
C4—C5—C6—N1−0.2 (5)C9—N8—C12—O12−174.4 (3)
C4—C5—C6—Cl1179.8 (3)C7—N8—C12—O12−11.5 (6)
C2—C3—C7—N8115.6 (3)C9—N8—C12—N115.7 (4)
C4—C3—C7—N8−66.6 (4)C7—N8—C12—N11168.6 (3)
D—H···AD—HH···AD···AD—H···A
N11—H11···O12i0.85 (5)2.08 (5)2.924 (4)174 (5)
C4—H4···N1ii0.932.553.369 (5)147
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N11—H11⋯O12i0.85 (5)2.08 (5)2.924 (4)174 (5)
C4—H4⋯N1ii0.932.553.369 (5)147

Symmetry codes: (i) ; (ii) .

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Authors:  Daniel A Schulz-Jander; John E Casida
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7.  Ethyl 3-[(6-chloro-pyridin-3-yl)meth-yl]-2-oxoimidazolidine-1-carboxyl-ate.

Authors:  Kamini Kapoor; Vivek K Gupta; Madhukar B Deshmukh; Chetan S Shripanavar; Rajni Kant
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8.  1-[(6-Chloro-pyridin-3-yl)meth-yl]imidazolidin-2-iminium chloride.

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