| Literature DB >> 34164147 |
Sevgi Kansiz1, Digdem Tatlidil2, Necmi Dege3, Feyzi Alkim Aktas4, Samir Osman Mohammed Al-Asbahy5,6, Aysen Alaman Agar2.
Abstract
The title compound, C22H18N2O2, is a Schiff base that exists in the phenol-imine tautomeric form and adopts an E configuration with respect to the C=N bond. The mol-ecular structure is stabilized by an O-H⋯N hydrogen bond, forming an S(6) ring motif. In the crystal, pairs of C-H⋯O hydrogen bonds link the mol-ecules to form inversion dimers. Weak π-π stacking inter-actions along the a-axis direction provide additional stabilization of the crystal structure. The mol-ecule is non-planar, the aromatic ring of the benzaldehyde residue being nearly perpendicular to the phenyl and 4-methyl-phenol rings with dihedral angles of 88.78 (13) and 82.26 (14)°, respectively. A mol-ecular docking study between the title mol-ecule and the COVID-19 main protease (PDB ID: 6LU7) was performed, showing that it is a potential agent because of its affinity and ability to adhere to the active sites of the protein. © Kansiz et al. 2021.Entities:
Keywords: COVID-19 main protease; Schiff base; crystal structure; diphenylethan; molecular docking
Year: 2021 PMID: 34164147 PMCID: PMC8183453 DOI: 10.1107/S2056989021005442
Source DB: PubMed Journal: Acta Crystallogr E Crystallogr Commun
Figure 1The molecular structure of the title compound with the atom-labelling scheme. Displacement ellipsoids are drawn at the 40% probability level. Dashed lines denote the intramolecular O—H⋯N hydrogen bonds forming an S(6) ring motif.
Hydrogen-bond geometry (Å, °)
|
|
| H⋯ |
|
|
|---|---|---|---|---|
| O2—H2⋯N2 | 0.82 | 1.94 | 2.650 (5) | 145 |
| C3—H3⋯O2i | 0.93 | 2.54 | 3.434 (8) | 162 |
Symmetry code: (i) -x+1, -y+2, -z+1.
Figure 2A view of the crystal packing of the title compound. Blue dashed lines denote the intermolecular C3—H3⋯O2 hydrogen bonds forming an inversion dimer (Table 1 ▸).
Figure 3Three-dimensional visualization of the intermolecular interactions for the best binding pose of the title compound docking with 6LU7.
Figure 4Two-dimensional visuals of the intermolecular interactions for the best binding pose of the title compound docking with 6LU7.
Figure 5Three-dimensional conformation of the complex of the title compound with 6LU7.
Experimental details
| Crystal data | |
| Chemical formula | C22H18N2O2 |
|
| 342.38 |
| Crystal system, space group | Monoclinic, |
| Temperature (K) | 296 |
|
| 7.4089 (6), 11.4544 (14), 21.9491 (17) |
| β (°) | 97.814 (6) |
|
| 1845.4 (3) |
|
| 4 |
| Radiation type | Mo |
| μ (mm−1) | 0.08 |
| Crystal size (mm) | 0.71 × 0.49 × 0.21 |
| Data collection | |
| Diffractometer | Stoe |
| Absorption correction | Integration ( |
|
| 0.952, 0.987 |
| No. of measured, independent and observed [ | 8376, 3262, 1801 |
|
| 0.037 |
| (sin θ/λ)max (Å−1) | 0.596 |
| Refinement | |
|
| 0.085, 0.287, 1.11 |
| No. of reflections | 3262 |
| No. of parameters | 237 |
| No. of restraints | 84 |
| H-atom treatment | H-atom parameters constrained |
| Δρmax, Δρmin (e Å−3) | 0.50, −0.45 |
Computer programs: X-AREA and X-RED (Stoe & Cie, 2002 ▸), SHELXT2018/3 (Sheldrick, 2015a ▸), SHELXL2018/3 (Sheldrick, 2015b ▸), PLATON (Spek, 2020 ▸) and WinGX (Farrugia, 2012 ▸).
| C22H18N2O2 | |
| Monoclinic, | Mo |
| Cell parameters from 7807 reflections | |
| θ = 1.8–29.1° | |
| µ = 0.08 mm−1 | |
| β = 97.814 (6)° | |
| Prism, orange | |
| 0.71 × 0.49 × 0.21 mm |
| Stoe IPDS 2 diffractometer | 3262 independent reflections |
| Radiation source: sealed X-ray tube, 12 x 0.4 mm long-fine focus | 1801 reflections with |
| Plane graphite monochromator | |
| Detector resolution: 6.67 pixels mm-1 | θmax = 25.1°, θmin = 1.9° |
| rotation method scans | |
| Absorption correction: integration (X-RED32; Stoe & Cie, 2002) | |
| 8376 measured reflections |
| Refinement on | 84 restraints |
| Least-squares matrix: full | Hydrogen site location: inferred from neighbouring sites |
| H-atom parameters constrained | |
| (Δ/σ)max < 0.001 | |
| 3262 reflections | Δρmax = 0.50 e Å−3 |
| 237 parameters | Δρmin = −0.45 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. |
| N2 | 0.8073 (5) | 0.5988 (3) | 0.50905 (13) | 0.0632 (9) | |
| N1 | 0.7264 (5) | 0.5098 (3) | 0.47015 (13) | 0.0650 (9) | |
| O2 | 0.9055 (6) | 0.8135 (3) | 0.54443 (14) | 0.0968 (12) | |
| H2 | 0.866243 | 0.762928 | 0.519659 | 0.145* | |
| O1 | 0.8305 (6) | 0.6961 (4) | 0.37321 (16) | 0.1135 (14) | |
| C16 | 0.9521 (5) | 0.6438 (4) | 0.61058 (16) | 0.0587 (10) | |
| C9 | 0.5718 (5) | 0.4721 (4) | 0.36834 (16) | 0.0604 (10) | |
| C15 | 0.8727 (5) | 0.5634 (4) | 0.56320 (16) | 0.0605 (10) | |
| H15 | 0.869084 | 0.484218 | 0.572232 | 0.073* | |
| C8 | 0.6674 (5) | 0.5488 (3) | 0.41603 (16) | 0.0587 (10) | |
| C21 | 1.0127 (6) | 0.6008 (4) | 0.66984 (15) | 0.0647 (11) | |
| H21 | 1.008655 | 0.520813 | 0.676726 | 0.078* | |
| C14 | 0.5475 (6) | 0.3537 (4) | 0.37911 (18) | 0.0701 (12) | |
| H14 | 0.592287 | 0.321938 | 0.417175 | 0.084* | |
| C20 | 1.0782 (6) | 0.6731 (5) | 0.71822 (17) | 0.0722 (12) | |
| C7 | 0.7011 (7) | 0.6748 (4) | 0.39951 (17) | 0.0729 (12) | |
| C17 | 0.9626 (6) | 0.7633 (4) | 0.59982 (19) | 0.0704 (12) | |
| C10 | 0.5008 (6) | 0.5172 (4) | 0.31111 (17) | 0.0740 (12) | |
| H10 | 0.513452 | 0.596328 | 0.303221 | 0.089* | |
| C13 | 0.4574 (7) | 0.2826 (4) | 0.3337 (2) | 0.0806 (13) | |
| H13 | 0.442179 | 0.203596 | 0.341196 | 0.097* | |
| C12 | 0.3900 (7) | 0.3298 (5) | 0.2771 (2) | 0.0809 (14) | |
| H12 | 0.329630 | 0.282317 | 0.246532 | 0.097* | |
| C19 | 1.0877 (7) | 0.7906 (5) | 0.7057 (2) | 0.0844 (15) | |
| H19 | 1.134050 | 0.840615 | 0.737345 | 0.101* | |
| C11 | 0.4120 (7) | 0.4460 (5) | 0.26600 (19) | 0.0832 (14) | |
| H11 | 0.366915 | 0.477135 | 0.227836 | 0.100* | |
| C18 | 1.0317 (7) | 0.8376 (4) | 0.6481 (2) | 0.0874 (14) | |
| H18 | 1.039779 | 0.917581 | 0.641626 | 0.105* | |
| C22 | 1.1374 (8) | 0.6258 (6) | 0.78220 (19) | 0.0994 (18) | |
| H22A | 1.044825 | 0.641737 | 0.807719 | 0.149* | |
| H22B | 1.249168 | 0.662613 | 0.799408 | 0.149* | |
| H22C | 1.155645 | 0.543006 | 0.780046 | 0.149* | |
| C3 | 0.3300 (11) | 0.9322 (6) | 0.4407 (3) | 0.1213 (13) | |
| H3 | 0.245666 | 0.989489 | 0.447121 | 0.146* | |
| C2 | 0.2919 (10) | 0.8188 (5) | 0.4544 (3) | 0.1180 (12) | |
| H2A | 0.188797 | 0.799054 | 0.472040 | 0.142* | |
| C6 | 0.5724 (10) | 0.7645 (5) | 0.4144 (2) | 0.1031 (12) | |
| C1 | 0.4177 (10) | 0.7334 (5) | 0.4404 (2) | 0.1081 (12) | |
| H1 | 0.396996 | 0.655268 | 0.448600 | 0.130* | |
| C5 | 0.6069 (10) | 0.8824 (5) | 0.4039 (2) | 0.1137 (12) | |
| H5 | 0.710653 | 0.905524 | 0.387565 | 0.136* | |
| C4 | 0.4790 (11) | 0.9644 (6) | 0.4189 (2) | 0.1204 (13) | |
| H4 | 0.500278 | 1.043459 | 0.413196 | 0.144* |
| N2 | 0.066 (2) | 0.068 (2) | 0.0531 (17) | 0.0089 (17) | −0.0017 (14) | −0.0065 (15) |
| N1 | 0.073 (2) | 0.069 (2) | 0.0499 (17) | 0.0104 (17) | −0.0016 (15) | −0.0052 (15) |
| O2 | 0.137 (3) | 0.0681 (19) | 0.076 (2) | 0.010 (2) | −0.0158 (19) | 0.0019 (16) |
| O1 | 0.123 (3) | 0.137 (3) | 0.086 (2) | −0.046 (3) | 0.033 (2) | 0.010 (2) |
| C16 | 0.054 (2) | 0.070 (3) | 0.0515 (19) | 0.0107 (19) | 0.0062 (16) | −0.0051 (17) |
| C9 | 0.054 (2) | 0.076 (3) | 0.0511 (19) | 0.007 (2) | 0.0080 (16) | −0.0057 (18) |
| C15 | 0.059 (2) | 0.067 (2) | 0.055 (2) | 0.0119 (19) | 0.0068 (17) | −0.0041 (17) |
| C8 | 0.055 (2) | 0.071 (3) | 0.0500 (19) | 0.0077 (19) | 0.0063 (16) | 0.0002 (17) |
| C21 | 0.061 (3) | 0.083 (3) | 0.050 (2) | 0.001 (2) | 0.0076 (17) | −0.0030 (18) |
| C14 | 0.077 (3) | 0.073 (3) | 0.058 (2) | 0.006 (2) | 0.004 (2) | −0.002 (2) |
| C20 | 0.058 (3) | 0.103 (4) | 0.054 (2) | 0.003 (2) | 0.0051 (18) | −0.011 (2) |
| C7 | 0.084 (3) | 0.085 (3) | 0.047 (2) | −0.020 (3) | 0.001 (2) | 0.0051 (19) |
| C17 | 0.078 (3) | 0.070 (3) | 0.061 (2) | 0.012 (2) | 0.000 (2) | −0.007 (2) |
| C10 | 0.087 (3) | 0.082 (3) | 0.051 (2) | 0.003 (2) | 0.0026 (19) | −0.003 (2) |
| C13 | 0.083 (3) | 0.076 (3) | 0.082 (3) | 0.002 (2) | 0.010 (2) | −0.016 (2) |
| C12 | 0.073 (3) | 0.101 (4) | 0.068 (3) | 0.006 (3) | 0.003 (2) | −0.029 (3) |
| C19 | 0.077 (3) | 0.105 (4) | 0.068 (3) | −0.005 (3) | −0.001 (2) | −0.026 (3) |
| C11 | 0.087 (4) | 0.105 (4) | 0.054 (2) | 0.008 (3) | −0.002 (2) | −0.009 (2) |
| C18 | 0.098 (4) | 0.074 (3) | 0.087 (3) | 0.001 (3) | 0.001 (3) | −0.016 (2) |
| C22 | 0.097 (4) | 0.147 (5) | 0.052 (2) | −0.010 (3) | 0.000 (2) | −0.007 (3) |
| C3 | 0.163 (3) | 0.104 (2) | 0.0846 (19) | 0.038 (2) | −0.0283 (19) | −0.0113 (17) |
| C2 | 0.157 (3) | 0.105 (2) | 0.0817 (18) | 0.036 (2) | −0.0232 (18) | −0.0129 (17) |
| C6 | 0.153 (3) | 0.0836 (19) | 0.0617 (17) | 0.024 (2) | −0.0240 (17) | −0.0021 (16) |
| C1 | 0.150 (3) | 0.0933 (19) | 0.0707 (18) | 0.033 (2) | −0.0220 (18) | −0.0100 (16) |
| C5 | 0.165 (3) | 0.0914 (19) | 0.0731 (18) | 0.022 (2) | −0.0253 (18) | 0.0004 (16) |
| C4 | 0.169 (3) | 0.097 (2) | 0.0819 (19) | 0.028 (2) | −0.0292 (19) | −0.0017 (17) |
| N2—C15 | 1.287 (5) | C10—H10 | 0.9300 |
| N2—N1 | 1.411 (4) | C13—C12 | 1.384 (6) |
| N1—C8 | 1.289 (4) | C13—H13 | 0.9300 |
| O2—C17 | 1.359 (5) | C12—C11 | 1.366 (7) |
| O2—H2 | 0.8200 | C12—H12 | 0.9300 |
| O1—C7 | 1.209 (5) | C19—C18 | 1.384 (7) |
| C16—C17 | 1.393 (6) | C19—H19 | 0.9300 |
| C16—C21 | 1.406 (5) | C11—H11 | 0.9300 |
| C16—C15 | 1.452 (5) | C18—H18 | 0.9300 |
| C9—C14 | 1.393 (6) | C22—H22A | 0.9600 |
| C9—C10 | 1.393 (5) | C22—H22B | 0.9600 |
| C9—C8 | 1.472 (5) | C22—H22C | 0.9600 |
| C15—H15 | 0.9300 | C3—C4 | 1.314 (9) |
| C8—C7 | 1.518 (6) | C3—C2 | 1.372 (9) |
| C21—C20 | 1.382 (6) | C3—H3 | 0.9300 |
| C21—H21 | 0.9300 | C2—C1 | 1.413 (8) |
| C14—C13 | 1.386 (6) | C2—H2A | 0.9300 |
| C14—H14 | 0.9300 | C6—C1 | 1.393 (9) |
| C20—C19 | 1.377 (7) | C6—C5 | 1.399 (8) |
| C20—C22 | 1.514 (6) | C1—H1 | 0.9300 |
| C7—C6 | 1.469 (7) | C5—C4 | 1.405 (9) |
| C17—C18 | 1.402 (6) | C5—H5 | 0.9300 |
| C10—C11 | 1.379 (6) | C4—H4 | 0.9300 |
| C15—N2—N1 | 114.0 (3) | C11—C12—C13 | 120.2 (4) |
| C8—N1—N2 | 111.7 (3) | C11—C12—H12 | 119.9 |
| C17—O2—H2 | 109.5 | C13—C12—H12 | 119.9 |
| C17—C16—C21 | 118.9 (4) | C20—C19—C18 | 123.1 (4) |
| C17—C16—C15 | 121.9 (3) | C20—C19—H19 | 118.5 |
| C21—C16—C15 | 119.2 (4) | C18—C19—H19 | 118.5 |
| C14—C9—C10 | 118.2 (4) | C12—C11—C10 | 120.3 (4) |
| C14—C9—C8 | 121.4 (3) | C12—C11—H11 | 119.8 |
| C10—C9—C8 | 120.4 (4) | C10—C11—H11 | 119.8 |
| N2—C15—C16 | 121.8 (4) | C19—C18—C17 | 119.1 (5) |
| N2—C15—H15 | 119.1 | C19—C18—H18 | 120.4 |
| C16—C15—H15 | 119.1 | C17—C18—H18 | 120.4 |
| N1—C8—C9 | 121.2 (4) | C20—C22—H22A | 109.5 |
| N1—C8—C7 | 120.3 (3) | C20—C22—H22B | 109.5 |
| C9—C8—C7 | 118.5 (3) | H22A—C22—H22B | 109.5 |
| C20—C21—C16 | 122.4 (4) | C20—C22—H22C | 109.5 |
| C20—C21—H21 | 118.8 | H22A—C22—H22C | 109.5 |
| C16—C21—H21 | 118.8 | H22B—C22—H22C | 109.5 |
| C13—C14—C9 | 120.7 (4) | C4—C3—C2 | 123.6 (7) |
| C13—C14—H14 | 119.7 | C4—C3—H3 | 118.2 |
| C9—C14—H14 | 119.7 | C2—C3—H3 | 118.2 |
| C19—C20—C21 | 117.0 (4) | C3—C2—C1 | 116.5 (7) |
| C19—C20—C22 | 121.3 (4) | C3—C2—H2A | 121.8 |
| C21—C20—C22 | 121.7 (5) | C1—C2—H2A | 121.8 |
| O1—C7—C6 | 123.2 (5) | C1—C6—C5 | 119.6 (6) |
| O1—C7—C8 | 118.2 (5) | C1—C6—C7 | 120.5 (5) |
| C6—C7—C8 | 118.6 (4) | C5—C6—C7 | 119.9 (7) |
| O2—C17—C16 | 123.4 (4) | C6—C1—C2 | 121.0 (6) |
| O2—C17—C18 | 117.2 (4) | C6—C1—H1 | 119.5 |
| C16—C17—C18 | 119.5 (4) | C2—C1—H1 | 119.5 |
| C11—C10—C9 | 120.9 (5) | C6—C5—C4 | 117.6 (7) |
| C11—C10—H10 | 119.6 | C6—C5—H5 | 121.2 |
| C9—C10—H10 | 119.6 | C4—C5—H5 | 121.2 |
| C12—C13—C14 | 119.7 (5) | C3—C4—C5 | 121.6 (7) |
| C12—C13—H13 | 120.1 | C3—C4—H4 | 119.2 |
| C14—C13—H13 | 120.1 | C5—C4—H4 | 119.2 |
| C15—N2—N1—C8 | −178.3 (3) | C14—C9—C10—C11 | −1.2 (6) |
| N1—N2—C15—C16 | −176.5 (3) | C8—C9—C10—C11 | 179.6 (4) |
| C17—C16—C15—N2 | −0.4 (6) | C9—C14—C13—C12 | −0.3 (7) |
| C21—C16—C15—N2 | 176.7 (4) | C14—C13—C12—C11 | −0.1 (7) |
| N2—N1—C8—C9 | −177.8 (3) | C21—C20—C19—C18 | 1.5 (7) |
| N2—N1—C8—C7 | 4.3 (5) | C22—C20—C19—C18 | −178.7 (5) |
| C14—C9—C8—N1 | −2.4 (6) | C13—C12—C11—C10 | −0.2 (7) |
| C10—C9—C8—N1 | 176.7 (4) | C9—C10—C11—C12 | 0.9 (7) |
| C14—C9—C8—C7 | 175.5 (4) | C20—C19—C18—C17 | −0.4 (8) |
| C10—C9—C8—C7 | −5.3 (6) | O2—C17—C18—C19 | 178.6 (4) |
| C17—C16—C21—C20 | 1.7 (6) | C16—C17—C18—C19 | −0.1 (7) |
| C15—C16—C21—C20 | −175.5 (4) | C4—C3—C2—C1 | −3.8 (8) |
| C10—C9—C14—C13 | 0.9 (6) | O1—C7—C6—C1 | 174.8 (4) |
| C8—C9—C14—C13 | −179.9 (4) | C8—C7—C6—C1 | −3.2 (6) |
| C16—C21—C20—C19 | −2.1 (6) | O1—C7—C6—C5 | −6.6 (7) |
| C16—C21—C20—C22 | 178.0 (4) | C8—C7—C6—C5 | 175.3 (4) |
| N1—C8—C7—O1 | 96.0 (5) | C5—C6—C1—C2 | 2.1 (7) |
| C9—C8—C7—O1 | −81.9 (5) | C7—C6—C1—C2 | −179.4 (4) |
| N1—C8—C7—C6 | −85.9 (5) | C3—C2—C1—C6 | 0.5 (7) |
| C9—C8—C7—C6 | 96.2 (4) | C1—C6—C5—C4 | −1.6 (7) |
| C21—C16—C17—O2 | −179.2 (4) | C7—C6—C5—C4 | 179.9 (4) |
| C15—C16—C17—O2 | −2.1 (7) | C2—C3—C4—C5 | 4.4 (9) |
| C21—C16—C17—C18 | −0.5 (6) | C6—C5—C4—C3 | −1.5 (8) |
| C15—C16—C17—C18 | 176.6 (4) |
| H··· | ||||
| O2—H2···N2 | 0.82 | 1.94 | 2.650 (5) | 145 |
| C3—H3···O2i | 0.93 | 2.54 | 3.434 (8) | 162 |