| Literature DB >> 31391963 |
Necmi Dege1, Md Serajul Haque Faizi2, Onur Erman Doğan1, Erbil Ağar3, Irina A Golenya4.
Abstract
The title Schiff base compound, C13H9ClN4O5·0.5CH3CN, crystallizes as an aceto-nitrile hemisolvate; the solvent mol-ecule being located on a twofold rotation axis. The mol-ecule is nearly planar, with a dihedral angle between the two benzene rings of 3.7 (2)°. The configuration about the C=N bond is E, and there is an intra-molecular N-H⋯Onitro hydrogen bond present forming an S(6) ring motif. In the crystal, mol-ecules are linked by O-H⋯O and N-H⋯O hydrogen bonds, forming layers lying parallel to (10). The layers are linked by C-H⋯Cl hydrogen bonds, forming a supra-molecular framework. Within the framework there are offset π-π stacking inter-actions [inter-centroid distance = 3.833 (2) Å] present involving inversion-related mol-ecules. The DFT study shows that the HOMO and LUMO are localized in the plane extending from the phenol ring to the 2,4-di-nitro-benzene ring, and the HOMO-LUMO gap is found to be 0.13061 a.u.Entities:
Keywords: 2,4-dinitrophenyl; DFT; Schiff base; crystal structure; hydrazine; hydrogen bonding; supramolecular framework
Year: 2019 PMID: 31391963 PMCID: PMC6658971 DOI: 10.1107/S205698901900642X
Source DB: PubMed Journal: Acta Crystallogr E Crystallogr Commun
Figure 1The molecular structure of the title compound, with the atom labelling. Displacement ellipsoids are drawn at the 40% probability level. The intramolecular N—H⋯O hydrogen bond (see Table 1 ▸), forming an S(6) ring motif, is shown as a dashed line.
Hydrogen-bond geometry (Å, °)
|
|
| H⋯ |
|
|
|---|---|---|---|---|
| N2—H2⋯O5 | 0.86 | 2.01 | 2.619 (4) | 127 |
| O1—H1⋯O2i | 0.82 | 2.37 | 3.114 (4) | 152 |
| O1—H1⋯O3i | 0.82 | 2.25 | 2.998 (4) | 152 |
| N2—H2⋯O5ii | 0.86 | 2.58 | 3.362 (4) | 152 |
| C9—H9⋯Cl1iii | 0.93 | 2.72 | 3.485 (4) | 140 |
Symmetry codes: (i) ; (ii) ; (iii) .
Figure 2A view along the a axis of the crystal packing of the title compound. Hydrogen bonds (see Table 1 ▸) are shown as dashed lines. For clarity, the acetonitrile solvent molecules have been omitted and only hydrogen atoms H1 and H2 have been included.
Figure 3A view normal to plane (110) of the crystal packing of the title compound. Hydrogen bonds (see Table 1 ▸) are shown as dashed lines, and, for clarity, only hydrogen atoms H1, H2 and H9 have been included.
Figure 4Electron distribution of the HOMO-1, HOMO, LUMO and the LUMO+1 energy levels for the title compound.
Experimental details
| Crystal data | |
| Chemical formula | C13H9ClN4O5·0.5C2H3N |
|
| 357.22 |
| Crystal system, space group | Monoclinic, |
| Temperature (K) | 296 |
|
| 12.0614 (11), 9.6960 (6), 26.688 (2) |
| β (°) | 99.619 (7) |
|
| 3077.2 (4) |
|
| 8 |
| Radiation type | Mo |
| μ (mm−1) | 0.29 |
| Crystal size (mm) | 0.49 × 0.28 × 0.04 |
| Data collection | |
| Diffractometer | Stoe IPDS 2 |
| Absorption correction | Integration ( |
|
| 0.908, 0.989 |
| No. of measured, independent and observed [ | 8928, 3027, 1416 |
|
| 0.056 |
| (sin θ/λ)max (Å−1) | 0.617 |
| Refinement | |
|
| 0.057, 0.137, 0.93 |
| No. of reflections | 3027 |
| No. of parameters | 224 |
| H-atom treatment | H-atom parameters constrained |
| Δρmax, Δρmin (e Å−3) | 0.30, −0.26 |
Computer programs: X-AREA and X-RED32 (Stoe & Cie, 2002 ▸), SHELXT2018 (Sheldrick, 2015a ▸), SHELXL2018 (Sheldrick, 2015b ▸), Mercury (Macrae et al., 2008 ▸), ORTEP-3 for Windows and WinGX (Farrugia, 2012 ▸) and PLATON (Spek, 2009 ▸).
| C13H9ClN4O5·0.5C2H3N | |
| Monoclinic, | Mo |
| Cell parameters from 8879 reflections | |
| θ = 1.6–27.9° | |
| µ = 0.28 mm−1 | |
| β = 99.619 (7)° | |
| Plate, orange | |
| 0.49 × 0.28 × 0.04 mm |
| Stoe IPDS 2 diffractometer | 3027 independent reflections |
| Radiation source: sealed X-ray tube, 12 x 0.4 mm long-fine focus | 1416 reflections with |
| Plane graphite monochromator | |
| Detector resolution: 6.67 pixels mm-1 | θmax = 26.0°, θmin = 1.6° |
| rotation method scans | |
| Absorption correction: integration (X-RED32; Stoe & Cie, 2002) | |
| 8928 measured reflections |
| Refinement on | Primary atom site location: structure-invariant direct methods |
| Least-squares matrix: full | Secondary atom site location: difference Fourier map |
| Hydrogen site location: mixed | |
| H-atom parameters constrained | |
| 3027 reflections | (Δ/σ)max < 0.001 |
| 224 parameters | Δρmax = 0.30 e Å−3 |
| 0 restraints | Δρmin = −0.26 e Å−3 |
| Geometry. All esds (except the esd in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell esds are taken into account individually in the estimation of esds in distances, angles and torsion angles; correlations between esds in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell esds is used for estimating esds involving l.s. planes. |
| Occ. (<1) | |||||
| Cl1 | 0.52434 (10) | 1.07475 (11) | 0.57323 (4) | 0.0964 (4) | |
| O1 | 0.6912 (2) | 1.0735 (3) | 0.66391 (9) | 0.0832 (8) | |
| H1 | 0.733227 | 1.065785 | 0.691276 | 0.125* | |
| N1 | 0.6314 (2) | 0.5959 (3) | 0.49923 (11) | 0.0606 (7) | |
| N2 | 0.6383 (2) | 0.4785 (3) | 0.47069 (11) | 0.0633 (8) | |
| H2 | 0.684398 | 0.413575 | 0.481954 | 0.076* | |
| O4 | 0.6517 (2) | 0.1472 (3) | 0.37327 (11) | 0.0926 (9) | |
| N4 | 0.6512 (3) | 0.2398 (3) | 0.40402 (13) | 0.0736 (9) | |
| O5 | 0.7122 (3) | 0.2383 (3) | 0.44573 (11) | 0.0972 (9) | |
| O2 | 0.2825 (3) | 0.5344 (4) | 0.27290 (12) | 0.1162 (12) | |
| N3 | 0.3566 (3) | 0.4469 (5) | 0.28233 (14) | 0.0906 (11) | |
| C4 | 0.6977 (3) | 0.7239 (3) | 0.57388 (12) | 0.0547 (8) | |
| O3 | 0.3675 (3) | 0.3539 (4) | 0.25304 (12) | 0.1189 (12) | |
| C8 | 0.5723 (3) | 0.4668 (3) | 0.42510 (13) | 0.0572 (9) | |
| C7 | 0.6998 (3) | 0.6042 (3) | 0.54105 (14) | 0.0620 (9) | |
| H7 | 0.751146 | 0.533624 | 0.550646 | 0.074* | |
| C1 | 0.6946 (3) | 0.9554 (3) | 0.63640 (13) | 0.0622 (9) | |
| C3 | 0.6217 (3) | 0.8310 (3) | 0.55996 (12) | 0.0600 (9) | |
| H3 | 0.571249 | 0.825918 | 0.529585 | 0.072* | |
| C2 | 0.6210 (3) | 0.9437 (3) | 0.59087 (13) | 0.0618 (9) | |
| C13 | 0.5754 (3) | 0.3556 (3) | 0.39104 (13) | 0.0582 (9) | |
| C9 | 0.4926 (3) | 0.5706 (4) | 0.40833 (14) | 0.0666 (9) | |
| H9 | 0.486539 | 0.645038 | 0.429653 | 0.080* | |
| C5 | 0.7703 (3) | 0.7353 (4) | 0.61968 (13) | 0.0653 (10) | |
| H5 | 0.820955 | 0.664350 | 0.629757 | 0.078* | |
| C12 | 0.5062 (3) | 0.3507 (4) | 0.34458 (13) | 0.0664 (10) | |
| H12 | 0.510551 | 0.276937 | 0.322720 | 0.080* | |
| C11 | 0.4313 (3) | 0.4545 (4) | 0.33077 (13) | 0.0683 (10) | |
| C6 | 0.7698 (3) | 0.8491 (4) | 0.65093 (13) | 0.0658 (10) | |
| H6 | 0.819628 | 0.854208 | 0.681488 | 0.079* | |
| C10 | 0.4249 (3) | 0.5663 (4) | 0.36269 (15) | 0.0724 (10) | |
| H10 | 0.374492 | 0.637587 | 0.352688 | 0.087* | |
| C14 | 0.500000 | 0.8470 (10) | 0.250000 | 0.108 (2) | |
| N5 | 0.500000 | 0.7307 (8) | 0.250000 | 0.129 (2) | |
| C15 | 0.500000 | 0.9945 (8) | 0.250000 | 0.133 (3) | |
| H15A | 0.477479 | 1.027514 | 0.280695 | 0.200* | 0.5 |
| H15B | 0.448298 | 1.027514 | 0.221207 | 0.200* | 0.5 |
| H15C | 0.574223 | 1.027514 | 0.248098 | 0.200* | 0.5 |
| Cl1 | 0.1112 (8) | 0.0726 (7) | 0.0951 (8) | 0.0330 (6) | −0.0125 (6) | −0.0092 (6) |
| O1 | 0.096 (2) | 0.0762 (17) | 0.0716 (18) | 0.0121 (15) | −0.0028 (15) | −0.0197 (14) |
| N1 | 0.0692 (19) | 0.0535 (17) | 0.0591 (18) | 0.0024 (14) | 0.0106 (17) | −0.0066 (14) |
| N2 | 0.074 (2) | 0.0512 (17) | 0.0631 (19) | 0.0102 (14) | 0.0082 (17) | −0.0038 (14) |
| O4 | 0.116 (2) | 0.0702 (17) | 0.0891 (19) | 0.0191 (16) | 0.0082 (18) | −0.0220 (16) |
| N4 | 0.089 (2) | 0.063 (2) | 0.068 (2) | 0.0086 (18) | 0.009 (2) | −0.0067 (18) |
| O5 | 0.123 (2) | 0.0750 (19) | 0.0822 (19) | 0.0406 (17) | −0.0170 (18) | −0.0116 (15) |
| O2 | 0.086 (2) | 0.166 (3) | 0.089 (2) | 0.016 (2) | −0.0102 (19) | 0.023 (2) |
| N3 | 0.067 (2) | 0.142 (4) | 0.063 (2) | −0.009 (3) | 0.010 (2) | 0.012 (2) |
| C4 | 0.058 (2) | 0.0523 (19) | 0.054 (2) | −0.0033 (17) | 0.0103 (18) | 0.0007 (17) |
| O3 | 0.102 (2) | 0.181 (4) | 0.068 (2) | 0.004 (2) | −0.0016 (18) | −0.029 (2) |
| C8 | 0.065 (2) | 0.052 (2) | 0.054 (2) | −0.0015 (17) | 0.0092 (19) | 0.0003 (17) |
| C7 | 0.067 (2) | 0.057 (2) | 0.063 (2) | 0.0063 (17) | 0.013 (2) | −0.0013 (18) |
| C1 | 0.067 (2) | 0.061 (2) | 0.059 (2) | 0.0006 (19) | 0.0101 (19) | −0.0087 (18) |
| C3 | 0.065 (2) | 0.058 (2) | 0.054 (2) | 0.0043 (18) | 0.0010 (18) | 0.0017 (17) |
| C2 | 0.068 (2) | 0.055 (2) | 0.061 (2) | 0.0074 (18) | 0.006 (2) | 0.0002 (18) |
| C13 | 0.060 (2) | 0.056 (2) | 0.059 (2) | 0.0045 (17) | 0.0111 (19) | 0.0004 (17) |
| C9 | 0.070 (2) | 0.060 (2) | 0.071 (3) | 0.009 (2) | 0.015 (2) | 0.0028 (19) |
| C5 | 0.060 (2) | 0.071 (2) | 0.064 (2) | 0.0143 (19) | 0.009 (2) | 0.003 (2) |
| C12 | 0.075 (3) | 0.071 (2) | 0.055 (2) | −0.005 (2) | 0.016 (2) | −0.0022 (19) |
| C11 | 0.065 (2) | 0.089 (3) | 0.051 (2) | −0.007 (2) | 0.010 (2) | 0.007 (2) |
| C6 | 0.064 (2) | 0.076 (2) | 0.053 (2) | 0.003 (2) | −0.0012 (18) | −0.0052 (19) |
| C10 | 0.071 (3) | 0.075 (2) | 0.072 (3) | 0.010 (2) | 0.013 (2) | 0.011 (2) |
| C14 | 0.090 (5) | 0.123 (7) | 0.110 (6) | 0.000 | 0.012 (4) | 0.000 |
| N5 | 0.121 (5) | 0.120 (5) | 0.137 (5) | 0.000 | −0.001 (4) | 0.000 |
| C15 | 0.103 (6) | 0.103 (6) | 0.196 (9) | 0.000 | 0.029 (6) | 0.000 |
| Cl1—C2 | 1.736 (3) | C3—C2 | 1.370 (4) |
| O1—C1 | 1.364 (4) | C3—H3 | 0.9300 |
| O1—H1 | 0.8200 | C13—C12 | 1.375 (5) |
| N1—C7 | 1.275 (4) | C9—C10 | 1.349 (5) |
| N1—N2 | 1.380 (3) | C9—H9 | 0.9300 |
| N2—C8 | 1.343 (4) | C5—C6 | 1.384 (4) |
| N2—H2 | 0.8600 | C5—H5 | 0.9300 |
| O4—N4 | 1.217 (3) | C12—C11 | 1.362 (5) |
| N4—O5 | 1.228 (4) | C12—H12 | 0.9300 |
| N4—C13 | 1.452 (4) | C11—C10 | 1.388 (5) |
| O2—N3 | 1.228 (5) | C6—H6 | 0.9300 |
| N3—O3 | 1.215 (4) | C10—H10 | 0.9300 |
| N3—C11 | 1.449 (5) | C14—N5 | 1.128 (9) |
| C4—C5 | 1.384 (4) | C14—C15 | 1.430 (10) |
| C4—C3 | 1.394 (4) | C15—H15A | 0.9600 |
| C4—C7 | 1.457 (4) | C15—H15B | 0.9600 |
| C8—C9 | 1.411 (5) | C15—H15C | 0.9600 |
| C8—C13 | 1.414 (4) | C15—H15Ai | 0.9600 |
| C7—H7 | 0.9300 | C15—H15Bi | 0.9600 |
| C1—C2 | 1.384 (5) | C15—H15Ci | 0.9600 |
| C1—C6 | 1.385 (5) | ||
| C1—O1—H1 | 109.5 | C4—C5—H5 | 119.0 |
| C7—N1—N2 | 116.5 (3) | C6—C5—H5 | 119.0 |
| C8—N2—N1 | 119.2 (3) | C11—C12—C13 | 119.6 (3) |
| C8—N2—H2 | 120.4 | C11—C12—H12 | 120.2 |
| N1—N2—H2 | 120.4 | C13—C12—H12 | 120.2 |
| O4—N4—O5 | 122.1 (3) | C12—C11—C10 | 120.9 (4) |
| O4—N4—C13 | 118.9 (3) | C12—C11—N3 | 119.3 (4) |
| O5—N4—C13 | 118.9 (3) | C10—C11—N3 | 119.8 (4) |
| O3—N3—O2 | 122.3 (4) | C5—C6—C1 | 119.5 (3) |
| O3—N3—C11 | 119.6 (4) | C5—C6—H6 | 120.2 |
| O2—N3—C11 | 118.1 (4) | C1—C6—H6 | 120.2 |
| C5—C4—C3 | 117.8 (3) | C9—C10—C11 | 119.4 (4) |
| C5—C4—C7 | 121.5 (3) | C9—C10—H10 | 120.3 |
| C3—C4—C7 | 120.6 (3) | C11—C10—H10 | 120.3 |
| N2—C8—C9 | 119.8 (3) | N5—C14—C15 | 180.0 |
| N2—C8—C13 | 124.8 (3) | C14—C15—H15A | 109.5 |
| C9—C8—C13 | 115.4 (3) | C14—C15—H15B | 109.5 |
| N1—C7—C4 | 120.2 (3) | H15A—C15—H15B | 109.5 |
| N1—C7—H7 | 119.9 | C14—C15—H15C | 109.5 |
| C4—C7—H7 | 119.9 | H15A—C15—H15C | 109.5 |
| O1—C1—C2 | 117.9 (3) | H15B—C15—H15C | 109.5 |
| O1—C1—C6 | 123.4 (3) | C14—C15—H15Ai | 109.471 (2) |
| C2—C1—C6 | 118.6 (3) | H15A—C15—H15Ai | 141.1 |
| C2—C3—C4 | 120.2 (3) | H15B—C15—H15Ai | 56.3 |
| C2—C3—H3 | 119.9 | H15C—C15—H15Ai | 56.2 |
| C4—C3—H3 | 119.9 | C14—C15—H15Bi | 109.470 (3) |
| C3—C2—C1 | 121.8 (3) | H15A—C15—H15Bi | 56.3 |
| C3—C2—Cl1 | 119.5 (3) | H15B—C15—H15Bi | 141.1 |
| C1—C2—Cl1 | 118.8 (3) | H15C—C15—H15Bi | 56.3 |
| C12—C13—C8 | 121.9 (3) | H15Ai—C15—H15Bi | 109.5 |
| C12—C13—N4 | 116.8 (3) | C14—C15—H15Ci | 109.470 (5) |
| C8—C13—N4 | 121.3 (3) | H15A—C15—H15Ci | 56.3 |
| C10—C9—C8 | 122.8 (4) | H15B—C15—H15Ci | 56.2 |
| C10—C9—H9 | 118.6 | H15C—C15—H15Ci | 141.1 |
| C8—C9—H9 | 118.6 | H15Ai—C15—H15Ci | 109.5 |
| C4—C5—C6 | 122.0 (3) | H15Bi—C15—H15Ci | 109.5 |
| C7—N1—N2—C8 | −176.8 (3) | O4—N4—C13—C8 | −179.3 (3) |
| N1—N2—C8—C9 | −3.5 (4) | O5—N4—C13—C8 | 1.0 (5) |
| N1—N2—C8—C13 | 176.4 (3) | N2—C8—C9—C10 | 178.9 (3) |
| N2—N1—C7—C4 | −179.4 (3) | C13—C8—C9—C10 | −1.0 (5) |
| C5—C4—C7—N1 | 179.5 (3) | C3—C4—C5—C6 | −0.8 (5) |
| C3—C4—C7—N1 | −0.4 (5) | C7—C4—C5—C6 | 179.4 (3) |
| C5—C4—C3—C2 | 0.7 (5) | C8—C13—C12—C11 | −0.7 (5) |
| C7—C4—C3—C2 | −179.4 (3) | N4—C13—C12—C11 | 178.3 (3) |
| C4—C3—C2—C1 | 0.0 (5) | C13—C12—C11—C10 | 0.9 (5) |
| C4—C3—C2—Cl1 | −179.1 (2) | C13—C12—C11—N3 | −178.4 (3) |
| O1—C1—C2—C3 | 177.5 (3) | O3—N3—C11—C12 | −5.6 (5) |
| C6—C1—C2—C3 | −0.6 (5) | O2—N3—C11—C12 | 172.9 (3) |
| O1—C1—C2—Cl1 | −3.4 (4) | O3—N3—C11—C10 | 175.1 (4) |
| C6—C1—C2—Cl1 | 178.5 (3) | O2—N3—C11—C10 | −6.4 (5) |
| N2—C8—C13—C12 | −179.2 (3) | C4—C5—C6—C1 | 0.1 (5) |
| C9—C8—C13—C12 | 0.7 (5) | O1—C1—C6—C5 | −177.5 (3) |
| N2—C8—C13—N4 | 1.8 (5) | C2—C1—C6—C5 | 0.6 (5) |
| C9—C8—C13—N4 | −178.3 (3) | C8—C9—C10—C11 | 1.3 (5) |
| O4—N4—C13—C12 | 1.7 (5) | C12—C11—C10—C9 | −1.2 (5) |
| O5—N4—C13—C12 | −178.0 (3) | N3—C11—C10—C9 | 178.1 (3) |
| H··· | ||||
| N2—H2···O5 | 0.86 | 2.01 | 2.619 (4) | 127 |
| O1—H1···O2ii | 0.82 | 2.37 | 3.114 (4) | 152 |
| O1—H1···O3ii | 0.82 | 2.25 | 2.998 (4) | 152 |
| N2—H2···O5iii | 0.86 | 2.58 | 3.362 (4) | 152 |
| C9—H9···Cl1iv | 0.93 | 2.72 | 3.485 (4) | 140 |