Literature DB >> 22058768

1-(3-Chloro-phen-yl)-2-methyl-4-nitro-1H-imidazole-5-carboxamide.

Artur Korzański, Paweł Wagner, Maciej Kubicki.   

Abstract

In the crystal structure of the title compound, C(11)H(9)ClN(4)O(3), pairs of N-H⋯N(imidazole) hydrogen bonds connect the mol-ecules into centrosymmetric dimers, which are further connected by N-H⋯O(carbamo-yl) hydrogen bonds into C(4) chains along [010]. Inter-play of these two kinds of hydrogen bonds connect the mol-ecules into layers perpendicular to [101]. The imidazole [maximum deviation 0.0069 (9) Å] and phenyl rings are inclined at a dihedral angle of 58.44 (6)°; the nitro group is almost coplanar [dihedral angle 5.8 (2)°] with the imidazole ring while the carbamoyl group is almost perpendicular [70.15 (13)°] to it.

Entities:  

Year:  2011        PMID: 22058768      PMCID: PMC3201265          DOI: 10.1107/S1600536811036609

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


Related literature

For the synthesis, see: Suwiński et al. (1994 ▶). For similar nitro­imidazole derivatives, see: Kubicki (2004a ▶,b ▶). For a recent experimental charge density study of a nitro­imidazole derivative, see: Paul et al. (2011 ▶).

Experimental

Crystal data

C11H9ClN4O3 M = 280.67 Monoclinic, a = 21.8417 (14) Å b = 7.3710 (4) Å c = 16.2467 (10) Å β = 108.680 (7)° V = 2477.9 (3) Å3 Z = 8 Mo Kα radiation μ = 0.32 mm−1 T = 295 K 0.25 × 0.2 × 0.08 mm

Data collection

Agilent Xcalibur Sapphire2 diffractometer Absorption correction: multi-scan (CrysAlis PRO; Agilent, 2010 ▶) T min = 0.833, T max = 1.000 4943 measured reflections 2702 independent reflections 2185 reflections with I > 2σ(I) R int = 0.019

Refinement

R[F 2 > 2σ(F 2)] = 0.038 wR(F 2) = 0.104 S = 1.04 2702 reflections 197 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.30 e Å−3 Δρmin = −0.32 e Å−3 Data collection: CrysAlis PRO (Agilent, 2010 ▶); cell refinement: CrysAlis PRO; data reduction: CrysAlis PRO; program(s) used to solve structure: SIR92 (Altomare et al., 1993 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: SHELXTL (Sheldrick, 2008 ▶) and Mercury (Macrae et al., 2008 ▶); software used to prepare material for publication: SHELXL97. Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536811036609/zk2021sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811036609/zk2021Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536811036609/zk2021Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C11H9ClN4O3F(000) = 1152
Mr = 280.67Dx = 1.505 Mg m3
Monoclinic, Ce2/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -C 2ycCell parameters from 1970 reflections
a = 21.8417 (14) Åθ = 2.6–27.8°
b = 7.3710 (4) ŵ = 0.32 mm1
c = 16.2467 (10) ÅT = 295 K
β = 108.680 (7)°Plate, colourless
V = 2477.9 (3) Å30.25 × 0.2 × 0.08 mm
Z = 8
Agilent Xcalibur Sapphire2 diffractometer2702 independent reflections
Radiation source: Enhance (Mo) X-ray Source2185 reflections with I > 2σ(I)
graphiteRint = 0.019
Detector resolution: 8.1929 pixels mm-1θmax = 27.9°, θmin = 2.8°
ω–scanh = −28→23
Absorption correction: multi-scan (CrysAlis PRO; Agilent, 2010)k = −9→9
Tmin = 0.833, Tmax = 1.000l = −19→20
4943 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)] = 0.038Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.104H atoms treated by a mixture of independent and constrained refinement
S = 1.04w = 1/[σ2(Fo2) + (0.0514P)2 + 1.4411P] where P = (Fo2 + 2Fc2)/3
2702 reflections(Δ/σ)max < 0.001
197 parametersΔρmax = 0.30 e Å3
0 restraintsΔρmin = −0.32 e Å3
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 > 2σ(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
N10.17359 (6)0.85257 (17)0.33362 (8)0.0271 (3)
C110.12098 (7)0.8118 (2)0.25590 (9)0.0293 (3)
C120.09423 (8)0.6397 (2)0.24501 (11)0.0332 (4)
H120.1077 (9)0.552 (3)0.2894 (12)0.037 (5)*
C130.04732 (8)0.6004 (2)0.16645 (11)0.0379 (4)
Cl130.01602 (3)0.38209 (7)0.14854 (4)0.05910 (19)
C140.02578 (10)0.7283 (3)0.10197 (12)0.0504 (5)
H14−0.0065 (11)0.699 (3)0.0509 (15)0.064 (7)*
C150.05307 (10)0.8993 (3)0.11556 (13)0.0560 (6)
H150.0382 (12)0.991 (4)0.0733 (17)0.072 (7)*
C160.10138 (9)0.9419 (3)0.19203 (12)0.0415 (4)
H160.1217 (10)1.055 (3)0.2009 (13)0.046 (5)*
C20.17800 (8)0.9965 (2)0.38931 (10)0.0305 (3)
C210.12317 (10)1.1186 (3)0.38571 (14)0.0502 (5)
H21A0.13421.19200.43720.075*
H21B0.08561.04730.38210.075*
H21C0.11421.19550.33550.075*
N30.23569 (7)1.00575 (17)0.44768 (8)0.0310 (3)
C40.26864 (7)0.8643 (2)0.42808 (9)0.0266 (3)
N40.33550 (7)0.83535 (19)0.47546 (8)0.0339 (3)
O410.36067 (7)0.9295 (2)0.53941 (9)0.0568 (4)
O420.36375 (6)0.7157 (2)0.44992 (9)0.0543 (4)
C50.23205 (7)0.76476 (19)0.35908 (9)0.0249 (3)
C510.24424 (7)0.5998 (2)0.31274 (9)0.0267 (3)
O510.24669 (7)0.61445 (15)0.23864 (7)0.0387 (3)
N510.24967 (7)0.44533 (19)0.35555 (9)0.0342 (3)
H51A0.2520 (9)0.444 (3)0.4089 (13)0.039 (5)*
H51B0.2552 (9)0.346 (3)0.3297 (12)0.037 (5)*
U11U22U33U12U13U23
N10.0274 (6)0.0263 (6)0.0261 (6)0.0018 (5)0.0067 (5)−0.0005 (5)
C110.0257 (7)0.0328 (8)0.0273 (7)0.0001 (6)0.0054 (6)−0.0001 (6)
C120.0332 (8)0.0334 (8)0.0308 (8)−0.0010 (7)0.0071 (7)0.0005 (7)
C130.0336 (9)0.0394 (9)0.0379 (9)−0.0081 (7)0.0073 (7)−0.0065 (7)
Cl130.0610 (3)0.0487 (3)0.0575 (3)−0.0197 (2)0.0048 (3)−0.0114 (2)
C140.0399 (10)0.0630 (13)0.0362 (10)−0.0071 (9)−0.0046 (8)0.0027 (9)
C150.0496 (12)0.0587 (13)0.0426 (10)−0.0043 (10)−0.0093 (9)0.0181 (10)
C160.0367 (9)0.0388 (10)0.0409 (9)−0.0040 (8)0.0012 (7)0.0092 (8)
C20.0370 (8)0.0255 (7)0.0299 (7)0.0026 (6)0.0118 (6)−0.0003 (6)
C210.0482 (11)0.0447 (11)0.0579 (12)0.0155 (9)0.0174 (9)−0.0052 (9)
N30.0387 (7)0.0269 (7)0.0272 (6)0.0012 (6)0.0103 (6)−0.0035 (5)
C40.0303 (8)0.0266 (7)0.0215 (6)0.0000 (6)0.0066 (6)0.0000 (6)
N40.0332 (7)0.0368 (7)0.0279 (6)−0.0020 (6)0.0045 (6)−0.0023 (6)
O410.0461 (8)0.0674 (9)0.0430 (7)−0.0046 (7)−0.0050 (6)−0.0219 (7)
O420.0351 (7)0.0607 (9)0.0597 (8)0.0109 (6)0.0049 (6)−0.0182 (7)
C50.0278 (7)0.0243 (7)0.0219 (6)0.0008 (6)0.0071 (6)0.0016 (5)
C510.0283 (7)0.0257 (7)0.0245 (7)0.0003 (6)0.0062 (6)−0.0027 (6)
O510.0627 (8)0.0305 (6)0.0268 (6)0.0056 (6)0.0196 (5)0.0008 (5)
N510.0530 (9)0.0239 (7)0.0266 (7)0.0029 (6)0.0142 (6)−0.0014 (6)
N1—C51.3719 (19)C2—C211.484 (2)
N1—C21.3774 (19)C21—H21A0.9600
N1—C111.4408 (19)C21—H21B0.9600
C11—C161.377 (2)C21—H21C0.9600
C11—C121.384 (2)N3—C41.361 (2)
C12—C131.388 (2)C4—C51.364 (2)
C12—H120.94 (2)C4—N41.432 (2)
C13—C141.376 (3)N4—O421.2228 (19)
C13—Cl131.7360 (18)N4—O411.2236 (18)
C14—C151.381 (3)C5—C511.498 (2)
C14—H140.93 (2)C51—O511.2270 (18)
C15—C161.384 (3)C51—N511.319 (2)
C15—H150.94 (3)N51—H51A0.85 (2)
C16—H160.93 (2)N51—H51B0.87 (2)
C2—N31.314 (2)
C5—N1—C2107.62 (12)N1—C2—C21123.73 (15)
C5—N1—C11124.74 (12)C2—C21—H21A109.5
C2—N1—C11127.22 (13)C2—C21—H21B109.5
C16—C11—C12121.72 (15)H21A—C21—H21B109.5
C16—C11—N1118.89 (15)C2—C21—H21C109.5
C12—C11—N1119.27 (14)H21A—C21—H21C109.5
C11—C12—C13117.78 (15)H21B—C21—H21C109.5
C11—C12—H12121.0 (11)C2—N3—C4104.35 (13)
C13—C12—H12121.2 (11)N3—C4—C5112.95 (14)
C14—C13—C12121.94 (17)N3—C4—N4120.85 (13)
C14—C13—Cl13119.18 (14)C5—C4—N4126.15 (14)
C12—C13—Cl13118.87 (14)O42—N4—O41123.99 (15)
C13—C14—C15118.62 (17)O42—N4—C4117.62 (13)
C13—C14—H14119.8 (15)O41—N4—C4118.38 (14)
C15—C14—H14121.6 (15)C4—C5—N1103.76 (13)
C14—C15—C16121.11 (18)C4—C5—C51134.27 (14)
C14—C15—H15120.4 (15)N1—C5—C51121.97 (13)
C16—C15—H15118.5 (15)O51—C51—N51124.64 (14)
C11—C16—C15118.79 (18)O51—C51—C5119.48 (13)
C11—C16—H16119.2 (13)N51—C51—C5115.84 (13)
C15—C16—H16122.0 (12)C51—N51—H51A121.0 (14)
N3—C2—N1111.31 (14)C51—N51—H51B118.4 (12)
N3—C2—C21124.90 (15)H51A—N51—H51B120.2 (19)
C5—N1—C11—C16−115.99 (18)C21—C2—N3—C4177.36 (16)
C2—N1—C11—C1655.6 (2)C2—N3—C4—C5−0.99 (17)
C5—N1—C11—C1260.0 (2)C2—N3—C4—N4176.64 (14)
C2—N1—C11—C12−128.44 (17)N3—C4—N4—O42−173.81 (15)
C16—C11—C12—C131.1 (3)C5—C4—N4—O423.5 (2)
N1—C11—C12—C13−174.80 (15)N3—C4—N4—O417.2 (2)
C11—C12—C13—C14−2.3 (3)C5—C4—N4—O41−175.54 (15)
C11—C12—C13—Cl13176.52 (12)N3—C4—C5—N11.33 (17)
C12—C13—C14—C151.6 (3)N4—C4—C5—N1−176.15 (14)
Cl13—C13—C14—C15−177.23 (17)N3—C4—C5—C51−179.51 (15)
C13—C14—C15—C160.4 (3)N4—C4—C5—C513.0 (3)
C12—C11—C16—C150.8 (3)C2—N1—C5—C4−1.11 (15)
N1—C11—C16—C15176.73 (17)C11—N1—C5—C4171.84 (13)
C14—C15—C16—C11−1.6 (3)C2—N1—C5—C51179.59 (13)
C5—N1—C2—N30.58 (17)C11—N1—C5—C51−7.5 (2)
C11—N1—C2—N3−172.15 (14)C4—C5—C51—O51−110.4 (2)
C5—N1—C2—C21−176.59 (16)N1—C5—C51—O5168.6 (2)
C11—N1—C2—C2110.7 (2)C4—C5—C51—N5171.6 (2)
N1—C2—N3—C40.23 (17)N1—C5—C51—N51−109.36 (17)
D—H···AD—HH···AD···AD—H···A
N51—H51A···N3i0.85 (2)2.29 (2)3.130 (2)169.2 (18)
N51—H51B···O51ii0.87 (2)2.03 (2)2.8938 (19)171.3 (18)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N51—H51A⋯N3i0.85 (2)2.29 (2)3.130 (2)169.2 (18)
N51—H51B⋯O51ii0.87 (2)2.03 (2)2.8938 (19)171.3 (18)

Symmetry codes: (i) ; (ii) .

  4 in total

1.  Cyano-cyano and chloro-cyano interactions in two imidazole derivatives.

Authors:  Maciej Kubicki
Journal:  Acta Crystallogr C       Date:  2004-03-11       Impact factor: 1.172

2.  A short history of SHELX.

Authors:  George M Sheldrick
Journal:  Acta Crystallogr A       Date:  2007-12-21       Impact factor: 2.290

3.  R-free factor and experimental charge-density analysis of 1-(2'-aminophenyl)-2-methyl-4-nitroimidazole: a crystal structure with Z' = 2.

Authors:  Agnieszka Paul; Maciej Kubicki; Christian Jelsch; Pierrick Durand; Claude Lecomte
Journal:  Acta Crystallogr B       Date:  2011-07-18

4.  1-(4-Bromophenyl)-2-methyl-4-nitro-1H-imidazole: bifurcated Br...O halogen-nitro bonds.

Authors:  Maciej Kubicki
Journal:  Acta Crystallogr C       Date:  2004-04-21       Impact factor: 1.172

  4 in total

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