| Literature DB >> 35371539 |
Khammed A Asadov1, Victor N Khrustalev2,3, Ekaterina V Dobrokhotova2, Mehmet Akkurt4, Afet T Huseynova1, Anzurat A Akobirshoeva5, Elnur Z Huseynov1.
Abstract
The central tetra-hydro-pyridine ring of the title compound, C19H17N3O2, adopts a screw-boat conformation. In the crystal, strong C-H⋯O and N-H⋯N hydrogen bonds form dimers with R 2 2(14) and R 2 2(12) ring motifs, respectively, between consecutive mol-ecules along the c-axis direction. Inter-molecular N-H⋯O and C-H⋯O hydrogen bonds connect these dimers, forming a three-dimensional network. C-H⋯π inter-actions and π-π stacking inter-actions contribute to the stabilization of the mol-ecular packing. A Hirshfeld surface analysis indicates that the contributions from the most prevalent inter-actions are H⋯H (47.1%), C⋯H/H⋯C (20.9%), O⋯H/H⋯O (15.3%) and N⋯H/H⋯N (11.4%). © Asadov et al. 2022.Entities:
Keywords: Hirshfeld surface analysis; crystal structure; dimers; hydrogen bonds; tetrahydropyridine
Year: 2022 PMID: 35371539 PMCID: PMC8900505 DOI: 10.1107/S205698902200175X
Source DB: PubMed Journal: Acta Crystallogr E Crystallogr Commun
Figure 1The molecular structure of the title compound with displacement ellipsoids drawn at the 30% probability level.
Figure 2A general view of the N—H⋯N, N—H⋯O and C—H⋯O hydrogen bonds in the crystal packing of the title compound [symmetry codes: (i) −x, −y, −z + 1; (ii) x − , −y + , z − ; (iii) −x + 1, −y + 1, −z + 1; (iv) x, y − 1, z; (vi) + x, − y, + z].
Hydrogen-bond geometry (Å, °)
Cg3 is the centroid of the C13–C18 benzene ring of the methoxyphenyl group.
|
|
| H⋯ |
|
|
|---|---|---|---|---|
| N3—H3 | 0.91 (2) | 2.10 (2) | 2.996 (2) | 166 (2) |
| N3—H3 | 0.91 (2) | 2.48 (2) | 3.152 (2) | 131.0 (19) |
| C11—H11⋯O1iii | 0.95 | 2.55 | 3.210 (3) | 127 |
| C14—H14⋯O1iv | 0.95 | 2.48 | 3.199 (2) | 133 |
| C10—H10⋯ | 0.95 | 2.99 | 3.813 (3) | 146 |
| C18—H18⋯ | 0.95 | 2.87 | 3.716 (2) | 150 |
Symmetry codes: (i) ; (ii) ; (iii) ; (iv) ; (v) .
Figure 3The crystal packing of the title compound, viewed along the b axis, showing the N—H⋯N, N—H⋯O and C—H⋯O hydrogen bonds as dashed lines.
Figure 4A general view of the C—H⋯π interactions and π–π stacking interactions in the crystal packing of the title compound [symmetry codes: (iii) −x + 1, −y + 1, −z + 1; (v) −x + , y + , −z + ].
Figure 5The crystal packing of the title compound, viewed along the b axis, showing the C—H⋯π interactions and π–π stacking interactions as dashed lines.
Summary of short interatomic contacts (Å) in the title compound
| Contact | Distance | Symmetry operation |
|---|---|---|
| O1⋯H14 | 2.48 |
|
| H11⋯O1 | 2.55 | 1 − |
| N2⋯H17 | 2.70 |
|
| O2⋯H3 | 2.48 (2) |
|
| H3 | 2.10 (3) | - |
| C20⋯C6 | 3.318 (3) | - |
Figure 6Hirshfeld surface mapped over d norm showing the N—H⋯N, N—H⋯O and C—H⋯O intermolecular contacts.
Figure 7View of the three-dimensional Hirshfeld surface of the title compound, showing the hydrogen-bonding interactions, plotted over electrostatic potential energy in the range −0.0500 to 0.0500 a.u. using the STO-3 G basis set at the Hartree–Fock level of theory. Hydrogen-bond donors and acceptors are shown as blue and red regions, respectively, around the atoms, corresponding to positive and negative potentials.
Figure 8(a) The full two-dimensional fingerprint plot for the title compound and those delineated into (b) H⋯H (47.1%), (c) C⋯H/H⋯C (20.9%), (d) O⋯H/H⋯O (15.3%) and (e) N⋯H/H⋯N (11.4%) contacts.
Experimental details
| Crystal data | |
| Chemical formula | C19H17N3O2 |
|
| 319.36 |
| Crystal system, space group | Monoclinic, |
| Temperature (K) | 100 |
|
| 12.910 (3), 6.3200 (13), 21.170 (4) |
| β (°) | 106.48 (3) |
|
| 1656.3 (7) |
|
| 4 |
| Radiation type | Synchrotron, λ = 0.80246 Å |
| μ (mm−1) | 0.11 |
| Crystal size (mm) | 0.40 × 0.15 × 0.07 |
| Data collection | |
| Diffractometer | Rayonix SX165 CCD |
| Absorption correction | Multi-scan ( |
|
| 0.950, 0.985 |
| No. of measured, independent and observed [ | 26143, 3603, 3125 |
|
| 0.049 |
| (sin θ/λ)max (Å−1) | 0.643 |
| Refinement | |
|
| 0.054, 0.143, 1.05 |
| No. of reflections | 3603 |
| No. of parameters | 225 |
| H-atom treatment | H atoms treated by a mixture of independent and constrained refinement |
| Δρmax, Δρmin (e Å−3) | 0.29, −0.27 |
Computer programs: Marccd (Doyle, 2011 ▸), iMosflm (Battye et al., 2011 ▸), SHELXT (Sheldrick, 2015a ▸), SHELXL (Sheldrick, 2015b ▸), ORTEP-3 for Windows (Farrugia, 2012 ▸) and PLATON (Spek, 2020 ▸).
| C19H17N3O2 | |
| Monoclinic, | Synchrotron radiation, λ = 0.80246 Å |
| Cell parameters from 600 reflections | |
| θ = 2.4–30.0° | |
| µ = 0.11 mm−1 | |
| β = 106.48 (3)° | |
| Prism, colourless | |
| 0.40 × 0.15 × 0.07 mm |
| Rayonix SX165 CCD diffractometer | 3125 reflections with |
| /f scan | |
| Absorption correction: multi-scan (Scala;Evans, 2006) | θmax = 31.1°, θmin = 2.3° |
| 26143 measured reflections | |
| 3603 independent reflections |
| Refinement on | Secondary atom site location: difference Fourier map |
| Least-squares matrix: full | Hydrogen site location: mixed |
| H atoms treated by a mixture of independent and constrained refinement | |
| (Δ/σ)max < 0.001 | |
| 3603 reflections | Δρmax = 0.29 e Å−3 |
| 225 parameters | Δρmin = −0.27 e Å−3 |
| 0 restraints | Extinction correction: SHELXL, Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4 |
| Primary atom site location: difference Fourier map | Extinction coefficient: 0.033 (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. |
| O1 | 0.33220 (11) | 0.8608 (2) | 0.55256 (7) | 0.0332 (3) | |
| O2 | 0.55206 (12) | 0.1472 (3) | 0.79862 (7) | 0.0413 (4) | |
| N1 | 0.24126 (11) | 0.5628 (2) | 0.50951 (7) | 0.0269 (3) | |
| N2 | −0.03015 (13) | 0.1368 (3) | 0.56257 (8) | 0.0321 (4) | |
| N3 | 0.12078 (12) | 0.3027 (3) | 0.45307 (8) | 0.0300 (4) | |
| H3C | 0.0857 (18) | 0.177 (4) | 0.4520 (11) | 0.036* | |
| H3D | 0.1458 (19) | 0.336 (4) | 0.4183 (12) | 0.036* | |
| C2 | 0.26361 (14) | 0.7307 (3) | 0.55371 (9) | 0.0272 (4) | |
| C3 | 0.19790 (14) | 0.7407 (3) | 0.60221 (9) | 0.0287 (4) | |
| H3A | 0.1284 | 0.8122 | 0.5814 | 0.034* | |
| H3B | 0.2372 | 0.8254 | 0.6409 | 0.034* | |
| C4 | 0.17589 (14) | 0.5196 (3) | 0.62495 (9) | 0.0277 (4) | |
| H4 | 0.1221 | 0.5339 | 0.6506 | 0.033* | |
| C5 | 0.12391 (13) | 0.3942 (3) | 0.56355 (9) | 0.0268 (4) | |
| C6 | 0.15916 (13) | 0.4149 (3) | 0.50888 (9) | 0.0262 (4) | |
| C7 | 0.30690 (13) | 0.5355 (3) | 0.46514 (9) | 0.0279 (4) | |
| C8 | 0.31570 (15) | 0.6969 (3) | 0.42287 (9) | 0.0338 (4) | |
| H8 | 0.2765 | 0.8249 | 0.4215 | 0.041* | |
| C9 | 0.38256 (17) | 0.6690 (4) | 0.38261 (11) | 0.0408 (5) | |
| H9 | 0.3906 | 0.7800 | 0.3541 | 0.049* | |
| C10 | 0.43779 (17) | 0.4806 (4) | 0.38357 (11) | 0.0421 (5) | |
| H10 | 0.4827 | 0.4624 | 0.3554 | 0.051* | |
| C11 | 0.42768 (16) | 0.3194 (4) | 0.42533 (10) | 0.0379 (5) | |
| H11 | 0.4651 | 0.1898 | 0.4256 | 0.045* | |
| C12 | 0.36267 (15) | 0.3466 (3) | 0.46698 (9) | 0.0314 (4) | |
| H12 | 0.3564 | 0.2370 | 0.4964 | 0.038* | |
| C13 | 0.27801 (14) | 0.4188 (3) | 0.66992 (9) | 0.0266 (4) | |
| C14 | 0.32417 (14) | 0.2403 (3) | 0.65102 (9) | 0.0274 (4) | |
| H14 | 0.2927 | 0.1822 | 0.6085 | 0.033* | |
| C15 | 0.41514 (15) | 0.1438 (3) | 0.69241 (9) | 0.0298 (4) | |
| H15 | 0.4443 | 0.0197 | 0.6787 | 0.036* | |
| C16 | 0.46259 (15) | 0.2306 (3) | 0.75379 (9) | 0.0316 (4) | |
| C17 | 0.41891 (15) | 0.4125 (3) | 0.77340 (9) | 0.0333 (4) | |
| H17 | 0.4520 | 0.4735 | 0.8153 | 0.040* | |
| C18 | 0.32761 (15) | 0.5043 (3) | 0.73205 (9) | 0.0301 (4) | |
| H18 | 0.2980 | 0.6273 | 0.7460 | 0.036* | |
| C19 | 0.5911 (2) | −0.0507 (4) | 0.78134 (12) | 0.0535 (6) | |
| H19A | 0.6153 | −0.0321 | 0.7418 | 0.080* | |
| H19B | 0.5329 | −0.1558 | 0.7726 | 0.080* | |
| H19C | 0.6517 | −0.0995 | 0.8178 | 0.080* | |
| C20 | 0.03871 (13) | 0.2533 (3) | 0.56225 (9) | 0.0268 (4) |
| O1 | 0.0328 (7) | 0.0278 (7) | 0.0408 (7) | −0.0063 (5) | 0.0132 (6) | −0.0045 (6) |
| O2 | 0.0378 (7) | 0.0485 (9) | 0.0319 (7) | 0.0068 (6) | 0.0005 (6) | 0.0031 (6) |
| N1 | 0.0262 (7) | 0.0245 (7) | 0.0304 (7) | −0.0025 (6) | 0.0086 (6) | −0.0026 (6) |
| N2 | 0.0318 (8) | 0.0294 (8) | 0.0348 (8) | −0.0028 (6) | 0.0093 (6) | 0.0009 (7) |
| N3 | 0.0311 (8) | 0.0297 (8) | 0.0288 (8) | −0.0072 (6) | 0.0079 (6) | −0.0025 (6) |
| C2 | 0.0272 (8) | 0.0218 (8) | 0.0310 (9) | 0.0010 (6) | 0.0058 (7) | 0.0001 (7) |
| C3 | 0.0300 (8) | 0.0248 (8) | 0.0319 (9) | 0.0000 (7) | 0.0096 (7) | −0.0022 (7) |
| C4 | 0.0267 (8) | 0.0268 (9) | 0.0305 (9) | −0.0005 (7) | 0.0098 (7) | −0.0023 (7) |
| C5 | 0.0240 (8) | 0.0255 (8) | 0.0300 (9) | −0.0003 (6) | 0.0060 (6) | 0.0015 (7) |
| C6 | 0.0233 (7) | 0.0228 (8) | 0.0303 (8) | −0.0006 (6) | 0.0040 (6) | 0.0003 (7) |
| C7 | 0.0243 (8) | 0.0310 (9) | 0.0278 (8) | −0.0053 (7) | 0.0064 (6) | −0.0040 (7) |
| C8 | 0.0319 (9) | 0.0351 (10) | 0.0331 (9) | −0.0054 (8) | 0.0072 (7) | 0.0005 (8) |
| C9 | 0.0395 (10) | 0.0479 (12) | 0.0366 (10) | −0.0109 (9) | 0.0135 (8) | 0.0021 (9) |
| C10 | 0.0368 (10) | 0.0531 (13) | 0.0404 (11) | −0.0106 (9) | 0.0173 (9) | −0.0088 (10) |
| C11 | 0.0304 (9) | 0.0418 (11) | 0.0426 (11) | −0.0044 (8) | 0.0122 (8) | −0.0118 (9) |
| C12 | 0.0296 (9) | 0.0313 (9) | 0.0329 (9) | −0.0019 (7) | 0.0083 (7) | −0.0033 (8) |
| C13 | 0.0279 (8) | 0.0239 (8) | 0.0286 (8) | −0.0032 (6) | 0.0089 (7) | −0.0008 (7) |
| C14 | 0.0276 (8) | 0.0259 (8) | 0.0278 (8) | −0.0031 (7) | 0.0067 (7) | −0.0011 (7) |
| C15 | 0.0308 (8) | 0.0283 (9) | 0.0312 (9) | 0.0005 (7) | 0.0105 (7) | 0.0018 (7) |
| C16 | 0.0300 (9) | 0.0356 (10) | 0.0273 (9) | −0.0003 (7) | 0.0047 (7) | 0.0052 (7) |
| C17 | 0.0347 (9) | 0.0368 (10) | 0.0269 (9) | −0.0047 (8) | 0.0063 (7) | −0.0033 (8) |
| C18 | 0.0342 (9) | 0.0280 (9) | 0.0290 (9) | −0.0020 (7) | 0.0106 (7) | −0.0030 (7) |
| C19 | 0.0529 (13) | 0.0586 (15) | 0.0408 (12) | 0.0229 (12) | 0.0002 (10) | 0.0033 (11) |
| C20 | 0.0264 (8) | 0.0245 (8) | 0.0280 (8) | 0.0024 (7) | 0.0054 (6) | 0.0005 (7) |
| O1—C2 | 1.214 (2) | C8—H8 | 0.9500 |
| O2—C16 | 1.375 (2) | C9—C10 | 1.385 (3) |
| O2—C19 | 1.434 (3) | C9—H9 | 0.9500 |
| N1—C2 | 1.390 (2) | C10—C11 | 1.379 (3) |
| N1—C6 | 1.410 (2) | C10—H10 | 0.9500 |
| N1—C7 | 1.443 (2) | C11—C12 | 1.390 (3) |
| N2—C20 | 1.156 (2) | C11—H11 | 0.9500 |
| N3—C6 | 1.346 (2) | C12—H12 | 0.9500 |
| N3—H3C | 0.91 (2) | C13—C14 | 1.387 (2) |
| N3—H3D | 0.91 (2) | C13—C18 | 1.398 (3) |
| C2—C3 | 1.507 (2) | C14—C15 | 1.391 (3) |
| C3—C4 | 1.530 (2) | C14—H14 | 0.9500 |
| C3—H3A | 0.9900 | C15—C16 | 1.383 (3) |
| C3—H3B | 0.9900 | C15—H15 | 0.9500 |
| C4—C5 | 1.508 (2) | C16—C17 | 1.395 (3) |
| C4—C13 | 1.529 (2) | C17—C18 | 1.381 (3) |
| C4—H4 | 1.0000 | C17—H17 | 0.9500 |
| C5—C6 | 1.365 (2) | C18—H18 | 0.9500 |
| C5—C20 | 1.410 (2) | C19—H19A | 0.9800 |
| C7—C8 | 1.383 (3) | C19—H19B | 0.9800 |
| C7—C12 | 1.389 (3) | C19—H19C | 0.9800 |
| C8—C9 | 1.386 (3) | ||
| C16—O2—C19 | 116.44 (16) | C8—C9—H9 | 119.7 |
| C2—N1—C6 | 121.62 (15) | C11—C10—C9 | 120.19 (19) |
| C2—N1—C7 | 118.78 (14) | C11—C10—H10 | 119.9 |
| C6—N1—C7 | 119.55 (14) | C9—C10—H10 | 119.9 |
| C6—N3—H3C | 122.5 (15) | C10—C11—C12 | 119.9 (2) |
| C6—N3—H3D | 117.7 (15) | C10—C11—H11 | 120.0 |
| H3C—N3—H3D | 118 (2) | C12—C11—H11 | 120.0 |
| O1—C2—N1 | 121.14 (16) | C7—C12—C11 | 119.35 (19) |
| O1—C2—C3 | 122.71 (16) | C7—C12—H12 | 120.3 |
| N1—C2—C3 | 116.16 (15) | C11—C12—H12 | 120.3 |
| C2—C3—C4 | 111.53 (14) | C14—C13—C18 | 117.78 (17) |
| C2—C3—H3A | 109.3 | C14—C13—C4 | 121.64 (16) |
| C4—C3—H3A | 109.3 | C18—C13—C4 | 120.58 (16) |
| C2—C3—H3B | 109.3 | C13—C14—C15 | 122.01 (17) |
| C4—C3—H3B | 109.3 | C13—C14—H14 | 119.0 |
| H3A—C3—H3B | 108.0 | C15—C14—H14 | 119.0 |
| C5—C4—C13 | 114.33 (15) | C16—C15—C14 | 119.18 (17) |
| C5—C4—C3 | 106.59 (15) | C16—C15—H15 | 120.4 |
| C13—C4—C3 | 111.84 (14) | C14—C15—H15 | 120.4 |
| C5—C4—H4 | 108.0 | O2—C16—C15 | 123.92 (18) |
| C13—C4—H4 | 108.0 | O2—C16—C17 | 116.22 (17) |
| C3—C4—H4 | 108.0 | C15—C16—C17 | 119.86 (17) |
| C6—C5—C20 | 119.33 (16) | C18—C17—C16 | 120.13 (17) |
| C6—C5—C4 | 120.46 (15) | C18—C17—H17 | 119.9 |
| C20—C5—C4 | 120.21 (16) | C16—C17—H17 | 119.9 |
| N3—C6—C5 | 124.45 (16) | C17—C18—C13 | 121.01 (18) |
| N3—C6—N1 | 116.48 (16) | C17—C18—H18 | 119.5 |
| C5—C6—N1 | 119.07 (16) | C13—C18—H18 | 119.5 |
| C8—C7—C12 | 121.01 (17) | O2—C19—H19A | 109.5 |
| C8—C7—N1 | 120.29 (17) | O2—C19—H19B | 109.5 |
| C12—C7—N1 | 118.68 (16) | H19A—C19—H19B | 109.5 |
| C7—C8—C9 | 118.95 (19) | O2—C19—H19C | 109.5 |
| C7—C8—H8 | 120.5 | H19A—C19—H19C | 109.5 |
| C9—C8—H8 | 120.5 | H19B—C19—H19C | 109.5 |
| C10—C9—C8 | 120.5 (2) | N2—C20—C5 | 178.6 (2) |
| C10—C9—H9 | 119.7 | ||
| C6—N1—C2—O1 | −177.75 (16) | C12—C7—C8—C9 | −0.9 (3) |
| C7—N1—C2—O1 | 4.8 (3) | N1—C7—C8—C9 | 177.59 (17) |
| C6—N1—C2—C3 | 2.1 (2) | C7—C8—C9—C10 | 1.5 (3) |
| C7—N1—C2—C3 | −175.40 (15) | C8—C9—C10—C11 | −0.8 (3) |
| O1—C2—C3—C4 | −143.36 (18) | C9—C10—C11—C12 | −0.6 (3) |
| N1—C2—C3—C4 | 36.8 (2) | C8—C7—C12—C11 | −0.4 (3) |
| C2—C3—C4—C5 | −54.71 (18) | N1—C7—C12—C11 | −178.91 (16) |
| C2—C3—C4—C13 | 70.92 (19) | C10—C11—C12—C7 | 1.1 (3) |
| C13—C4—C5—C6 | −84.4 (2) | C5—C4—C13—C14 | 7.1 (2) |
| C3—C4—C5—C6 | 39.7 (2) | C3—C4—C13—C14 | −114.15 (18) |
| C13—C4—C5—C20 | 95.23 (19) | C5—C4—C13—C18 | −172.53 (16) |
| C3—C4—C5—C20 | −140.67 (16) | C3—C4—C13—C18 | 66.2 (2) |
| C20—C5—C6—N3 | −2.7 (3) | C18—C13—C14—C15 | 1.7 (3) |
| C4—C5—C6—N3 | 176.95 (17) | C4—C13—C14—C15 | −177.99 (16) |
| C20—C5—C6—N1 | 177.30 (15) | C13—C14—C15—C16 | −1.4 (3) |
| C4—C5—C6—N1 | −3.1 (2) | C19—O2—C16—C15 | −5.2 (3) |
| C2—N1—C6—N3 | 159.46 (16) | C19—O2—C16—C17 | 174.22 (19) |
| C7—N1—C6—N3 | −23.1 (2) | C14—C15—C16—O2 | 179.53 (17) |
| C2—N1—C6—C5 | −20.5 (2) | C14—C15—C16—C17 | 0.1 (3) |
| C7—N1—C6—C5 | 156.97 (16) | O2—C16—C17—C18 | −178.57 (17) |
| C2—N1—C7—C8 | −57.2 (2) | C15—C16—C17—C18 | 0.9 (3) |
| C6—N1—C7—C8 | 125.25 (18) | C16—C17—C18—C13 | −0.6 (3) |
| C2—N1—C7—C12 | 121.29 (18) | C14—C13—C18—C17 | −0.6 (3) |
| C6—N1—C7—C12 | −56.3 (2) | C4—C13—C18—C17 | 179.03 (17) |
| H··· | ||||
| N3—H3 | 0.91 (2) | 2.10 (2) | 2.996 (2) | 166 (2) |
| N3—H3 | 0.91 (2) | 2.48 (2) | 3.152 (2) | 131.0 (19) |
| C11—H11···O1iii | 0.95 | 2.55 | 3.210 (3) | 127 |
| C14—H14···O1iv | 0.95 | 2.48 | 3.199 (2) | 133 |
| C10—H10··· | 0.95 | 2.99 | 3.813 (3) | 146 |
| C18—H18··· | 0.95 | 2.87 | 3.716 (2) | 150 |