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Acta Crystallographica Section E: Structure Reports Online logoLink to Acta Crystallographica Section E: Structure Reports Online
. 2011 Apr 7;67(Pt 5):o1066. doi: 10.1107/S1600536811011469

(2-Chloro-3,5-dinitro­phen­yl)(piperidin-1-yl)methanone

Xun Luo a,*, Yun-Chuang Huang a, Chao Gao a, Luo-Ting Yu a
PMCID: PMC3089352  PMID: 21754392

Abstract

In the title compound, C12H12ClN3O5, the piperidine ring adopts a chair conformation. One of the nitro groups is almost coplanar with the aromatic ring [O—N—C—C = −1.4 (2)°], whereas the other one is significantly twisted out of the ring plane [O—N—C—C = 34.7 (2)°]. The crystal packing is stabilized by inter­molecular π–π stacking inter­actions with centroid–centroid distances of 3.579 (3) Å.

Related literature

For the biological activity of benzamide derivatives, see: Christophe et al. (2009).graphic file with name e-67-o1066-scheme1.jpg

Experimental

Crystal data

  • C12H12ClN3O5

  • M r = 313.70

  • Orthorhombic, Inline graphic

  • a = 10.7864 (3) Å

  • b = 11.1264 (3) Å

  • c = 21.9775 (5) Å

  • V = 2637.60 (11) Å3

  • Z = 8

  • Mo Kα radiation

  • μ = 0.32 mm−1

  • T = 150 K

  • 0.40 × 0.38 × 0.20 mm

Data collection

  • Oxford Diffraction Xcalibur Eos diffractometer

  • Absorption correction: multi-scan (CrysAlis PRO; Oxford Diffraction, 2006) T min = 0.979, T max = 1.0

  • 6722 measured reflections

  • 2696 independent reflections

  • 2240 reflections with I > 2σ(I)

  • R int = 0.021

Refinement

  • R[F 2 > 2σ(F 2)] = 0.033

  • wR(F 2) = 0.077

  • S = 1.05

  • 2696 reflections

  • 238 parameters

  • All H-atom parameters refined

  • Δρmax = 0.25 e Å−3

  • Δρmin = −0.24 e Å−3

Data collection: CrysAlis PRO (Oxford Diffraction, 2006); 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: OLEX2 (Dolomanov et al., 2009); software used to prepare material for publication: OLEX2.

Supplementary Material

Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536811011469/bt5492sup1.cif

e-67-o1066-sup1.cif (18.4KB, cif)

Structure factors: contains datablocks I. DOI: 10.1107/S1600536811011469/bt5492Isup2.hkl

e-67-o1066-Isup2.hkl (132.5KB, hkl)

Additional supplementary materials: crystallographic information; 3D view; checkCIF report

Acknowledgments

We thank the Analytical and Testing Center of Sichuan University for the X-ray measurements.

supplementary crystallographic information

Comment

Benzamide derivatives are of great importance owing to their antibacterial properties (Christophe et al., 2009). The title compound is one of the key intermediates in our synthetic investigations of antibacterial drugs.

The piperidine ring adopts a chair conformation. As shown in Fig.1, the amide group forms a dihedral angles of 75.96 (5)° and 51.61 (9)° with the benzene ring and the piperidine ring, respectively. The crystal packing is strengthened by intermolecular π–π stacking interaction with centroid–centroid distances of 3.579 (3) Å.

Experimental

A solution of 3.42 g (12.9 mmol) of 2-chloro-3,5-dinitrobenzoyl chloride in 20 ml of dichloromethane was added to a solution of 1.097 g (12.9 mmol) piperidine with a catalyst of 1.82 g (17.9 mmol) triethylamine. The mixture was stirred for 2 h at room temperature and extracted with water and dichloromethane, then the organic solvent was evaporated and the title compound was recrystallized from ethanol (yield 3.24 g, 80%). Crystals suitable for X-ray analysis were obtained by slow evaporation from a solution of ethyl acetate.

Figures

Fig. 1.

Fig. 1.

The molecular structure of the title compound, with displacement ellipsoids drawn at the 50% probability level.

Fig. 2.

Fig. 2.

A packing diagram of the title compound.

Crystal data

C12H12ClN3O5 F(000) = 1296
Mr = 313.70 Dx = 1.580 Mg m3
Orthorhombic, Pbca Mo Kα radiation, λ = 0.7107 Å
Hall symbol: -P 2ac 2ab Cell parameters from 3316 reflections
a = 10.7864 (3) Å θ = 3.2–29.1°
b = 11.1264 (3) Å µ = 0.32 mm1
c = 21.9775 (5) Å T = 150 K
V = 2637.60 (11) Å3 Block, yellow
Z = 8 0.40 × 0.38 × 0.20 mm

Data collection

Oxford Diffraction Xcalibur Eos diffractometer 2696 independent reflections
Radiation source: fine-focus sealed tube 2240 reflections with I > 2σ(I)
graphite Rint = 0.021
Detector resolution: 16.0874 pixels mm-1 θmax = 26.4°, θmin = 3.2°
ω scans h = −13→7
Absorption correction: multi-scan (CrysAlis PRO; Oxford Diffraction, 2006) k = −13→13
Tmin = 0.979, Tmax = 1.0 l = −27→15
6722 measured reflections

Refinement

Refinement on F2 Primary atom site location: structure-invariant direct methods
Least-squares matrix: full Secondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.033 Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.077 All H-atom parameters refined
S = 1.05 w = 1/[σ2(Fo2) + (0.0283P)2 + 0.9862P] where P = (Fo2 + 2Fc2)/3
2696 reflections (Δ/σ)max < 0.001
238 parameters Δρmax = 0.25 e Å3
0 restraints Δρmin = −0.24 e Å3

Special details

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.

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

x y z Uiso*/Ueq
Cl1 0.14710 (4) 0.51437 (4) 0.126198 (18) 0.02618 (12)
O1 0.28382 (11) 0.39665 (10) 0.03083 (6) 0.0308 (3)
O2 0.37259 (10) 0.52238 (11) −0.03080 (6) 0.0297 (3)
O3 0.06436 (13) 0.74355 (12) −0.14870 (6) 0.0376 (3)
O4 −0.09872 (13) 0.81129 (12) −0.10265 (6) 0.0409 (4)
O5 −0.18116 (11) 0.60708 (11) 0.10878 (6) 0.0331 (3)
N1 0.28706 (12) 0.49108 (12) 0.00224 (6) 0.0219 (3)
N2 −0.00012 (14) 0.75653 (13) −0.10356 (7) 0.0269 (3)
N3 −0.05433 (13) 0.73621 (12) 0.15851 (6) 0.0238 (3)
C1 0.10865 (14) 0.58412 (14) 0.05898 (7) 0.0179 (3)
C2 0.17880 (14) 0.57192 (13) 0.00600 (7) 0.0178 (3)
C3 0.14762 (15) 0.63140 (14) −0.04708 (7) 0.0188 (3)
H3 0.1955 (17) 0.6182 (15) −0.0830 (8) 0.028 (5)*
C4 0.04113 (15) 0.69969 (13) −0.04645 (7) 0.0191 (3)
C5 −0.03125 (16) 0.71333 (14) 0.00470 (7) 0.0204 (4)
H5 −0.1055 (16) 0.7566 (15) 0.0036 (7) 0.018 (4)*
C6 0.00352 (14) 0.65690 (13) 0.05846 (7) 0.0177 (3)
C7 −0.08451 (15) 0.66492 (14) 0.11200 (7) 0.0207 (3)
C8 0.05941 (16) 0.80784 (16) 0.16249 (9) 0.0274 (4)
H8A 0.1068 (18) 0.7963 (17) 0.1263 (9) 0.034 (5)*
H8B 0.1111 (17) 0.7754 (16) 0.1984 (9) 0.032 (5)*
C9 0.02738 (18) 0.93938 (16) 0.17196 (8) 0.0274 (4)
H9A −0.0143 (18) 0.9693 (16) 0.1353 (9) 0.031 (5)*
H9B 0.1038 (18) 0.9841 (16) 0.1769 (8) 0.029 (5)*
C10 −0.05450 (17) 0.95620 (17) 0.22745 (8) 0.0274 (4)
H10A −0.0069 (16) 0.9325 (15) 0.2639 (8) 0.025 (5)*
H10B −0.0785 (17) 1.0388 (17) 0.2320 (8) 0.033 (5)*
C11 −0.16990 (17) 0.87786 (17) 0.22253 (9) 0.0306 (4)
H11A −0.2230 (19) 0.9067 (18) 0.1888 (9) 0.040 (6)*
H11B −0.2193 (18) 0.8836 (16) 0.2593 (10) 0.041 (6)*
C12 −0.13634 (17) 0.74677 (16) 0.21155 (8) 0.0269 (4)
H12A −0.2103 (16) 0.7001 (15) 0.2041 (8) 0.022 (4)*
H12B −0.0908 (17) 0.7123 (15) 0.2473 (9) 0.028 (5)*

Atomic displacement parameters (Å2)

U11 U22 U33 U12 U13 U23
Cl1 0.0277 (2) 0.0334 (2) 0.0174 (2) 0.00122 (18) −0.00259 (17) 0.00550 (16)
O1 0.0322 (7) 0.0251 (6) 0.0350 (7) 0.0091 (6) −0.0015 (6) 0.0029 (6)
O2 0.0189 (6) 0.0370 (7) 0.0332 (7) −0.0013 (5) 0.0053 (5) −0.0070 (6)
O3 0.0446 (8) 0.0466 (8) 0.0216 (7) −0.0021 (7) −0.0007 (6) 0.0093 (6)
O4 0.0399 (8) 0.0395 (8) 0.0434 (8) 0.0123 (7) −0.0068 (7) 0.0168 (7)
O5 0.0250 (6) 0.0402 (7) 0.0341 (7) −0.0139 (6) 0.0082 (6) −0.0182 (6)
N1 0.0188 (7) 0.0246 (7) 0.0222 (7) 0.0011 (6) −0.0029 (6) −0.0045 (6)
N2 0.0329 (8) 0.0232 (7) 0.0246 (8) −0.0050 (7) −0.0055 (7) 0.0064 (6)
N3 0.0220 (7) 0.0285 (7) 0.0209 (7) −0.0096 (6) 0.0061 (6) −0.0079 (6)
C1 0.0199 (7) 0.0175 (8) 0.0162 (7) −0.0048 (7) −0.0022 (7) 0.0008 (6)
C2 0.0172 (7) 0.0166 (8) 0.0198 (8) −0.0012 (7) −0.0015 (6) −0.0035 (6)
C3 0.0215 (8) 0.0191 (8) 0.0159 (8) −0.0049 (7) 0.0011 (7) −0.0026 (6)
C4 0.0244 (8) 0.0141 (7) 0.0187 (8) −0.0030 (7) −0.0036 (7) 0.0014 (6)
C5 0.0203 (8) 0.0154 (8) 0.0256 (9) 0.0010 (7) −0.0010 (7) −0.0022 (7)
C6 0.0193 (7) 0.0151 (7) 0.0186 (8) −0.0038 (6) 0.0001 (7) −0.0048 (6)
C7 0.0205 (8) 0.0189 (8) 0.0228 (9) −0.0007 (7) 0.0018 (7) −0.0032 (7)
C8 0.0225 (9) 0.0332 (10) 0.0266 (10) −0.0106 (8) 0.0062 (8) −0.0110 (8)
C9 0.0303 (10) 0.0295 (10) 0.0224 (9) −0.0119 (8) 0.0016 (8) −0.0023 (7)
C10 0.0308 (9) 0.0256 (9) 0.0258 (9) −0.0027 (8) 0.0018 (8) −0.0077 (8)
C11 0.0261 (9) 0.0381 (11) 0.0277 (10) −0.0018 (8) 0.0076 (8) −0.0098 (8)
C12 0.0272 (9) 0.0322 (9) 0.0212 (9) −0.0100 (8) 0.0084 (8) −0.0058 (8)

Geometric parameters (Å, °)

Cl1—C1 1.7196 (16) C5—H5 0.935 (17)
O1—N1 1.2247 (17) C5—C6 1.389 (2)
O2—N1 1.2246 (17) C6—C7 1.515 (2)
O3—N2 1.2200 (19) C8—H8A 0.95 (2)
O4—N2 1.2260 (19) C8—H8B 1.032 (19)
O5—C7 1.2273 (19) C8—C9 1.518 (3)
N1—C2 1.476 (2) C9—H9A 0.98 (2)
N2—C4 1.474 (2) C9—H9B 0.97 (2)
N3—C7 1.334 (2) C9—C10 1.517 (2)
N3—C8 1.466 (2) C10—H10A 0.987 (18)
N3—C12 1.468 (2) C10—H10B 0.960 (19)
C1—C2 1.395 (2) C10—C11 1.523 (2)
C1—C6 1.394 (2) C11—H11A 0.99 (2)
C2—C3 1.383 (2) C11—H11B 0.97 (2)
C3—H3 0.954 (18) C11—C12 1.522 (3)
C3—C4 1.377 (2) C12—H12A 0.966 (17)
C4—C5 1.377 (2) C12—H12B 1.004 (19)
O1—N1—C2 118.12 (13) C6—C1—Cl1 117.75 (12)
O2—N1—O1 124.73 (14) C6—C1—C2 119.41 (14)
O2—N1—C2 117.11 (13) C6—C5—H5 119.0 (10)
O3—N2—O4 124.53 (15) C7—N3—C8 124.97 (14)
O3—N2—C4 118.00 (14) C7—N3—C12 120.59 (13)
O4—N2—C4 117.45 (15) C8—N3—C12 114.43 (13)
O5—C7—N3 124.28 (15) C8—C9—H9A 108.6 (11)
O5—C7—C6 117.18 (14) C8—C9—H9B 108.5 (10)
N3—C7—C6 118.51 (13) H8A—C8—H8B 107.6 (15)
N3—C8—H8A 109.0 (11) C9—C8—H8A 111.5 (12)
N3—C8—H8B 107.9 (10) C9—C8—H8B 110.8 (10)
N3—C8—C9 109.99 (15) C9—C10—H10A 108.5 (10)
N3—C12—C11 110.24 (15) C9—C10—H10B 111.1 (11)
N3—C12—H12A 108.7 (10) C9—C10—C11 110.37 (15)
N3—C12—H12B 107.2 (10) H9A—C9—H9B 107.9 (15)
C1—C2—N1 122.34 (14) C10—C9—C8 111.20 (15)
C1—C6—C7 122.55 (14) C10—C9—H9A 110.6 (11)
C2—C1—Cl1 122.84 (12) C10—C9—H9B 110.0 (11)
C2—C3—H3 119.5 (11) C10—C11—H11A 109.9 (12)
C3—C2—N1 115.90 (14) C10—C11—H11B 110.6 (11)
C3—C2—C1 121.70 (14) H10A—C10—H10B 108.1 (15)
C3—C4—N2 118.68 (14) C11—C10—H10A 109.2 (10)
C4—C3—C2 117.30 (15) C11—C10—H10B 109.5 (11)
C4—C3—H3 122.9 (11) C11—C12—H12A 110.2 (10)
C4—C5—H5 121.5 (10) C11—C12—H12B 111.0 (10)
C4—C5—C6 119.43 (15) H11A—C11—H11B 106.6 (16)
C5—C4—N2 118.47 (14) C12—C11—C10 111.42 (15)
C5—C4—C3 122.80 (15) C12—C11—H11A 109.2 (12)
C5—C6—C1 119.29 (14) C12—C11—H11B 109.0 (11)
C5—C6—C7 117.69 (14) H12A—C12—H12B 109.3 (14)
Cl1—C1—C2—N1 4.4 (2) C2—C3—C4—N2 −175.24 (14)
Cl1—C1—C2—C3 −178.34 (12) C2—C3—C4—C5 2.1 (2)
Cl1—C1—C6—C5 −179.12 (12) C3—C4—C5—C6 0.3 (2)
Cl1—C1—C6—C7 −7.17 (19) C4—C5—C6—C1 −2.2 (2)
O1—N1—C2—C1 34.7 (2) C4—C5—C6—C7 −174.59 (14)
O1—N1—C2—C3 −142.65 (15) C5—C6—C7—O5 71.21 (19)
O2—N1—C2—C1 −147.16 (15) C5—C6—C7—N3 −106.95 (18)
O2—N1—C2—C3 35.45 (19) C6—C1—C2—N1 −176.46 (13)
O3—N2—C4—C3 −2.2 (2) C6—C1—C2—C3 0.8 (2)
O3—N2—C4—C5 −179.72 (14) C7—N3—C8—C9 123.65 (18)
O4—N2—C4—C3 176.04 (14) C7—N3—C12—C11 −124.47 (17)
O4—N2—C4—C5 −1.4 (2) C8—N3—C7—O5 −178.63 (17)
N1—C2—C3—C4 174.76 (13) C8—N3—C7—C6 −0.6 (2)
N2—C4—C5—C6 177.67 (14) C8—N3—C12—C11 56.3 (2)
N3—C8—C9—C10 55.5 (2) C8—C9—C10—C11 −55.0 (2)
C1—C2—C3—C4 −2.6 (2) C9—C10—C11—C12 54.1 (2)
C1—C6—C7—O5 −100.86 (19) C10—C11—C12—N3 −53.7 (2)
C1—C6—C7—N3 81.0 (2) C12—N3—C7—O5 2.2 (3)
C2—C1—C6—C5 1.7 (2) C12—N3—C7—C6 −179.80 (15)
C2—C1—C6—C7 173.67 (14) C12—N3—C8—C9 −57.1 (2)

Footnotes

Supplementary data and figures for this paper are available from the IUCr electronic archives (Reference: BT5492).

References

  1. Christophe, T., Jackson, M., Jeon, H. K., Fenistein, D., Contreras-Dominguez, M., Kim, J., Genovesio, A., Carralot, J. P., Ewann, F., Kim, E. H., Lee, S. Y., Kang, S., Seo, M. J., Park, E. J., Skovierova, H., Pham, H., Riccardi, G., Nam, J. Y., Marsollier, L., Kempf, M., Joly-Guillou, M. L., Oh, T., Shin, W. K., No, Z., Nehrbass, U., Brosch, R., Cole, S. T. & Brodin, P. (2009). PLoS Pathog. 5, 1–10. [DOI] [PMC free article] [PubMed]
  2. Dolomanov, O. V., Bourhis, L. J., Gildea, R. J., Howard, J. A. K. & Puschmann, H. (2009). J. Appl. Cryst. 42, 339–341.
  3. Oxford Diffraction (2006). CrysAlis PRO Oxford Diffraction Ltd, Abingdon, England.
  4. Sheldrick, G. M. (2008). Acta Cryst. A64, 112–122. [DOI] [PubMed]

Associated Data

This section collects any data citations, data availability statements, or supplementary materials included in this article.

Supplementary Materials

Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536811011469/bt5492sup1.cif

e-67-o1066-sup1.cif (18.4KB, cif)

Structure factors: contains datablocks I. DOI: 10.1107/S1600536811011469/bt5492Isup2.hkl

e-67-o1066-Isup2.hkl (132.5KB, hkl)

Additional supplementary materials: crystallographic information; 3D view; checkCIF report


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