| Literature DB >> 31871762 |
Asmaa Saber1, Mohamed Srhir1, Tuncer Hökelek2, Joel T Mague3, Noureddine Hamou Ahabchane1, Nada Kheira Sebbar4,1, El Mokhtar Essassi1.
Abstract
In the title mol-ecule, C11H10N2O, the di-hydro-benzimidazol-2-one moiety is essentially planar, with the prop-2-yn-1-yl substituent rotated well out of this plane. In the crystal, C-HMthy⋯π(ring) inter-actions and C-HProp⋯ODhyr (Mthy = methyl, Prop = prop-2-yn-1-yl and Dhyr = di-hydro) hydrogen bonds form corrugated layers parallel to (10), which are associated through additional C-HBnz⋯ODhyr (Bnz = benzene) hydrogen bonds and head-to-tail, slipped, π-stacking [centroid-to-centroid distance = 3.7712 (7) Å] inter-actions between di-hydro-benzimidazol-2-one moieties. The Hirshfeld surface analysis of the crystal structure indicates that the most important contributions to the crystal packing are from H⋯H (44.1%), H⋯C/C⋯H (33.5%) and O⋯H/H⋯O (13.4%) inter-actions. Hydrogen-bonding and van der Waals inter-actions are the dominant inter-actions in the crystal packing. Computational chemistry calculations indicate that in the crystal, C-H⋯O hydrogen-bond energies are 46.8 and 32.5 (for C-HProp⋯ODhyr) and 20.2 (for C-HBnz⋯ODhyr) kJ mol-1. Density functional theory (DFT) optimized structures at the B3LYP/6-311 G(d,p) level are compared with the experimentally determined mol-ecular structure in the solid state. The HOMO-LUMO behaviour was elucidated to determine the energy gap. © Saber et al. 2019.Entities:
Keywords: C—H⋯π(ring) interaction; Hirshfeld surface; benzimidazol-2-one; crystal structure; hydrogen bond; π-stacking
Year: 2019 PMID: 31871762 PMCID: PMC6895944 DOI: 10.1107/S2056989019015779
Source DB: PubMed Journal: Acta Crystallogr E Crystallogr Commun
Figure 1The molecular structure of the title compound with the atom-numbering scheme. Displacement ellipsoids are drawn at the 50% probability level.
Hydrogen-bond geometry (Å, °)
Cg1 is the centroid of the C1–C6 benzene ring.
|
|
| H⋯ |
|
|
|---|---|---|---|---|
| C3—H3⋯O1ix | 1.005 (15) | 2.566 (15) | 3.4885 (15) | 152.6 (11) |
| C8—H8 | 1.004 (16) | 2.626 (15) | 3.5413 (13) | 151.1 (12) |
| C9—H9 | 0.978 (15) | 2.347 (15) | 3.3198 (14) | 172.9 (12) |
| C11—H11⋯O1vii | 1.010 (15) | 2.181 (15) | 3.1569 (15) | 162.1 (12) |
Symmetry codes: (v) ; (vi) ; (vii) ; (ix) .
Figure 2A partial packing diagram viewed along the a-axis direction with C—H⋯O hydrogen bonds, C—H⋯π(ring) and π-stacking interactions shown, respectively, by black, green and orange dashed lines.
Figure 3A partial packing diagram viewed along the b-axis direction with intermolecular interactions depicted as in Fig. 2 ▸.
Figure 4View of the three-dimensional Hirshfeld surface of the title compound plotted over d norm in the range −0.3997 to 1.3219 a.u.
Figure 5View of the three-dimensional Hirshfeld surface of the title compound 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 around the atoms corresponding to positive and negative potentials, respectively.
Figure 6Hirshfeld surface of the title compound plotted over shape-index.
Figure 7The full two-dimensional fingerprint plots for the title compound, showing (a) all interactions, and delineated into (b) H⋯H, (c) H⋯C/C⋯H, (d) H⋯O/O⋯H, (e) C⋯C, (f) H⋯N/N⋯H and (g) N⋯C/C⋯N interactions. The d i and d e values are the closest internal and external distances (in Å) from given points on the Hirshfeld surface contacts.
Selected interatomic distances (Å)
| O1⋯H9 | 2.491 (14) | C11⋯O1vii | 3.1569 (15) |
| O1⋯H3i | 2.566 (15) | C2⋯H8 | 2.82 (2) |
| O1⋯H8 | 2.516 (19) | C3⋯H8 | 2.859 (15) |
| O1⋯H9 | 2.346 (14) | C3⋯H8 | 2.92 (2) |
| O1⋯H11iii | 2.181 (15) | C4⋯H8 | 2.810 (15) |
| C2⋯C10 | 3.3889 (16) | C5⋯H8 | 2.935 (15) |
| C3⋯C8iv | 3.5335 (17) | C8⋯H5 | 2.983 (14) |
| C4⋯C8v | 3.4947 (17) | C9⋯H2 | 2.975 (14) |
| C4⋯C7iv | 3.5437 (16) | C10⋯H4viii | 2.976 (15) |
| C5⋯C8v | 3.5884 (17) | C11⋯H5iv | 2.865 (15) |
| C6⋯C6iv | 3.5349 (14) | C11⋯H4viii | 2.705 (15) |
| C9⋯O1vi | 3.3198 (14) |
Symmetry codes: (i) ; (ii) ; (iii) ; (iv) ; (v) ; (vi) ; (vii) ; (viii) .
Figure 8The Hirshfeld surface representations with the function d norm plotted onto the surface for (a) H⋯H, (b) H⋯C/C⋯H and (c) H⋯O/O⋯H interactions.
Comparison of the selected (X-ray and DFT) geometric data (Å, °)
| Bonds/angles | X-ray | B3LYP/6–311 G(d,p) |
|---|---|---|
| O1—C7 | 1.2281 (13) | 1.24660 |
| N1—C7 | 1.3735 (14) | 1.39764 |
| N1—C6 | 1.3874 (15) | 1.40100 |
| N1—C8 | 1.4526 (14) | 1.45375 |
| N2—C7 | 1.3807 (14) | 1.40268 |
| N2—C1 | 1.3910 (13) | 1.40222 |
| N2—C9 | 1.4545 (14) | 1.46036 |
| C7—N1—C6 | 110.19 (9) | 110.10303 |
| C7—N1—C8 | 124.14 (10) | 122.94288 |
| C6—N1—C8 | 125.66 (10) | 126.95366 |
| C7—N2—C1 | 110.16 (9) | 110.18664 |
| C7—N2—C9 | 123.55 (9) | 122.02491 |
| C1—N2—C9 | 126.00 (9) | 126.78733 |
| C2—C1—N2 | 131.64 (10) | 132.00719 |
Calculated energies for the title compound
| Molecular Energy (a.u.) (eV) | |
|---|---|
| Total Energy | −16594.1662 |
|
| −5.8885 |
|
| −0.4770 |
| Energy gap, | 5.4115 |
| Dipole moment, | 2.8313 |
| Ionization potential, | 5.8885 |
| Electron affinity, | 2.6040 |
| Electro negativity, | 0.31828 |
| Hardness, | 2.7058 |
| Electrophilicity index, | 1.8719 |
| Softness, | 0.3696 |
| Fraction of electron transferred, | 0.7054 |
Figure 9The energy band gap of the title compound.
Experimental details
| Crystal data | |
| Chemical formula | C11H10N2O |
|
| 186.21 |
| Crystal system, space group | Monoclinic, |
| Temperature (K) | 150 |
|
| 7.1507 (3), 8.8177 (4), 15.4602 (7) |
| β (°) | 97.914 (2) |
|
| 965.52 (7) |
|
| 4 |
| Radiation type | Cu |
| μ (mm−1) | 0.68 |
| Crystal size (mm) | 0.32 × 0.31 × 0.12 |
| Data collection | |
| Diffractometer | Bruker D8 VENTURE PHOTON 100 CMOS |
| Absorption correction | Multi-scan ( |
|
| 0.83, 0.92 |
| No. of measured, independent and observed [ | 6896, 1812, 1679 |
|
| 0.030 |
| (sin θ/λ)max (Å−1) | 0.610 |
| Refinement | |
|
| 0.033, 0.086, 1.06 |
| No. of reflections | 1812 |
| No. of parameters | 168 |
| H-atom treatment | All H-atom parameters refined |
| Δρmax, Δρmin (e Å−3) | 0.18, −0.19 |
Computer programs: APEX3 and SAINT (Bruker, 2016 ▸), SHELXT (Sheldrick, 2015a ▸), SHELXL2018 (Sheldrick, 2015b ▸), DIAMOND (Brandenburg & Putz, 2012 ▸) and SHELXTL (Sheldrick, 2008 ▸).
| C11H10N2O | |
| Monoclinic, | Cu |
| Cell parameters from 5848 reflections | |
| θ = 5.8–70.1° | |
| µ = 0.68 mm−1 | |
| β = 97.914 (2)° | |
| Plate, colourless | |
| 0.32 × 0.31 × 0.12 mm |
| Bruker D8 VENTURE PHOTON 100 CMOS diffractometer | 1812 independent reflections |
| Radiation source: INCOATEC IµS micro-focus source | 1679 reflections with |
| Mirror monochromator | |
| Detector resolution: 10.4167 pixels mm-1 | θmax = 70.1°, θmin = 5.8° |
| ω scans | |
| Absorption correction: multi-scan ( | |
| 6896 measured reflections |
| Refinement on | Secondary atom site location: difference Fourier map |
| Least-squares matrix: full | Hydrogen site location: difference Fourier map |
| All H-atom parameters refined | |
| (Δ/σ)max < 0.001 | |
| 1812 reflections | Δρmax = 0.18 e Å−3 |
| 168 parameters | Δρmin = −0.19 e Å−3 |
| 0 restraints | Extinction correction: |
| Primary atom site location: dual | Extinction coefficient: 0.0100 (12) |
| 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. |
| 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 > 2sigma(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. |
| O1 | 0.31019 (11) | 0.82725 (9) | 0.64517 (6) | 0.0345 (2) | |
| N1 | 0.24854 (12) | 0.64929 (11) | 0.53316 (6) | 0.0280 (2) | |
| N2 | 0.36075 (12) | 0.56773 (10) | 0.66470 (6) | 0.0250 (2) | |
| C1 | 0.33940 (14) | 0.44082 (11) | 0.61080 (7) | 0.0235 (2) | |
| C2 | 0.37638 (15) | 0.28918 (12) | 0.62754 (8) | 0.0289 (3) | |
| H2 | 0.426 (2) | 0.2543 (16) | 0.6872 (10) | 0.039 (4)* | |
| C3 | 0.34025 (16) | 0.18941 (14) | 0.55731 (8) | 0.0353 (3) | |
| H3 | 0.364 (2) | 0.0783 (17) | 0.5684 (10) | 0.043 (4)* | |
| C4 | 0.27117 (17) | 0.24106 (15) | 0.47421 (8) | 0.0378 (3) | |
| H4 | 0.246 (2) | 0.1678 (17) | 0.4255 (10) | 0.046 (4)* | |
| C5 | 0.23359 (16) | 0.39392 (15) | 0.45751 (7) | 0.0339 (3) | |
| H5 | 0.190 (2) | 0.4305 (16) | 0.3992 (10) | 0.042 (4)* | |
| C6 | 0.26803 (14) | 0.49324 (12) | 0.52720 (7) | 0.0255 (3) | |
| C7 | 0.30715 (14) | 0.69684 (12) | 0.61712 (7) | 0.0260 (2) | |
| C8 | 0.17860 (17) | 0.75002 (16) | 0.46162 (8) | 0.0381 (3) | |
| H8A | 0.255 (3) | 0.747 (2) | 0.4146 (13) | 0.076 (6)* | |
| H8B | 0.176 (3) | 0.854 (2) | 0.4867 (13) | 0.072 (5)* | |
| H8C | 0.044 (2) | 0.7264 (17) | 0.4370 (10) | 0.047 (4)* | |
| C9 | 0.44506 (16) | 0.56993 (13) | 0.75585 (7) | 0.0283 (3) | |
| H9A | 0.4344 (19) | 0.6753 (16) | 0.7764 (9) | 0.033 (3)* | |
| H9B | 0.376 (2) | 0.5012 (16) | 0.7898 (9) | 0.038 (3)* | |
| C10 | 0.64427 (15) | 0.52362 (12) | 0.76752 (7) | 0.0281 (3) | |
| C11 | 0.80385 (17) | 0.48197 (14) | 0.77883 (8) | 0.0342 (3) | |
| H11 | 0.938 (2) | 0.4443 (17) | 0.7926 (10) | 0.050 (4)* |
| O1 | 0.0298 (4) | 0.0254 (4) | 0.0471 (5) | 0.0006 (3) | 0.0015 (3) | −0.0012 (3) |
| N1 | 0.0239 (4) | 0.0309 (5) | 0.0277 (5) | −0.0020 (3) | −0.0012 (4) | 0.0074 (4) |
| N2 | 0.0254 (5) | 0.0249 (5) | 0.0236 (4) | 0.0005 (3) | −0.0007 (3) | −0.0007 (3) |
| C1 | 0.0196 (5) | 0.0264 (5) | 0.0244 (5) | −0.0023 (4) | 0.0028 (4) | −0.0014 (4) |
| C2 | 0.0249 (5) | 0.0281 (6) | 0.0337 (6) | −0.0008 (4) | 0.0041 (4) | 0.0011 (4) |
| C3 | 0.0298 (6) | 0.0300 (6) | 0.0469 (7) | −0.0021 (4) | 0.0088 (5) | −0.0072 (5) |
| C4 | 0.0339 (6) | 0.0427 (7) | 0.0384 (6) | −0.0083 (5) | 0.0107 (5) | −0.0158 (5) |
| C5 | 0.0286 (6) | 0.0486 (7) | 0.0248 (6) | −0.0089 (5) | 0.0048 (4) | −0.0032 (5) |
| C6 | 0.0207 (5) | 0.0307 (6) | 0.0254 (5) | −0.0046 (4) | 0.0037 (4) | 0.0014 (4) |
| C7 | 0.0189 (5) | 0.0261 (5) | 0.0328 (6) | −0.0007 (4) | 0.0025 (4) | 0.0025 (4) |
| C8 | 0.0294 (6) | 0.0450 (7) | 0.0380 (7) | −0.0013 (5) | −0.0019 (5) | 0.0189 (6) |
| C9 | 0.0296 (6) | 0.0332 (6) | 0.0218 (5) | 0.0004 (4) | 0.0019 (4) | −0.0014 (4) |
| C10 | 0.0333 (6) | 0.0293 (5) | 0.0206 (5) | −0.0018 (4) | −0.0004 (4) | 0.0014 (4) |
| C11 | 0.0330 (6) | 0.0381 (6) | 0.0298 (6) | 0.0022 (5) | −0.0016 (4) | 0.0030 (5) |
| O1—C7 | 1.2281 (13) | C4—C5 | 1.3915 (19) |
| N1—C7 | 1.3735 (14) | C4—H4 | 0.989 (16) |
| N1—C6 | 1.3874 (15) | C5—C6 | 1.3839 (16) |
| N1—C8 | 1.4526 (14) | C5—H5 | 0.967 (15) |
| N2—C7 | 1.3807 (14) | C8—H8A | 0.97 (2) |
| N2—C1 | 1.3910 (13) | C8—H8B | 0.99 (2) |
| N2—C9 | 1.4545 (14) | C8—H8C | 1.004 (16) |
| C1—C2 | 1.3805 (15) | C9—C10 | 1.4689 (16) |
| C1—C6 | 1.4011 (14) | C9—H9A | 0.988 (14) |
| C2—C3 | 1.3937 (17) | C9—H9B | 0.978 (15) |
| C2—H2 | 0.991 (15) | C10—C11 | 1.1885 (17) |
| C3—C4 | 1.3883 (19) | C11—H11 | 1.009 (16) |
| C3—H3 | 1.005 (15) | ||
| O1···H9A | 2.491 (14) | C11···O1vii | 3.1569 (15) |
| O1···H3i | 2.566 (15) | C2···H8Aiv | 2.82 (2) |
| O1···H8B | 2.516 (19) | C3···H8Cv | 2.859 (15) |
| O1···H9Bii | 2.346 (14) | C3···H8Aiv | 2.92 (2) |
| O1···H11iii | 2.181 (15) | C4···H8Cv | 2.810 (15) |
| C2···C10 | 3.3889 (16) | C5···H8Cv | 2.935 (15) |
| C3···C8iv | 3.5335 (17) | C8···H5 | 2.983 (14) |
| C4···C8v | 3.4947 (17) | C9···H2 | 2.975 (14) |
| C4···C7iv | 3.5437 (16) | C10···H4viii | 2.976 (15) |
| C5···C8v | 3.5884 (17) | C11···H5iv | 2.865 (15) |
| C6···C6iv | 3.5349 (14) | C11···H4viii | 2.705 (15) |
| C9···O1vi | 3.3198 (14) | ||
| C7—N1—C6 | 110.19 (9) | C5—C6—N1 | 132.12 (10) |
| C7—N1—C8 | 124.14 (10) | C5—C6—C1 | 120.83 (11) |
| C6—N1—C8 | 125.66 (10) | N1—C6—C1 | 107.04 (9) |
| C7—N2—C1 | 110.16 (9) | O1—C7—N1 | 127.43 (10) |
| C7—N2—C9 | 123.55 (9) | O1—C7—N2 | 126.43 (10) |
| C1—N2—C9 | 126.00 (9) | N1—C7—N2 | 106.14 (9) |
| C2—C1—N2 | 131.64 (10) | N1—C8—H8A | 112.7 (12) |
| C2—C1—C6 | 121.90 (10) | N1—C8—H8B | 106.7 (11) |
| N2—C1—C6 | 106.45 (9) | H8A—C8—H8B | 111.1 (16) |
| C1—C2—C3 | 117.07 (11) | N1—C8—H8C | 111.9 (9) |
| C1—C2—H2 | 120.7 (8) | H8A—C8—H8C | 108.5 (15) |
| C3—C2—H2 | 122.3 (8) | H8B—C8—H8C | 105.7 (13) |
| C4—C3—C2 | 121.20 (11) | N2—C9—C10 | 112.38 (9) |
| C4—C3—H3 | 120.5 (9) | N2—C9—H9A | 106.5 (8) |
| C2—C3—H3 | 118.3 (9) | C10—C9—H9A | 109.8 (8) |
| C3—C4—C5 | 121.63 (11) | N2—C9—H9B | 109.9 (8) |
| C3—C4—H4 | 119.6 (9) | C10—C9—H9B | 108.2 (8) |
| C5—C4—H4 | 118.8 (9) | H9A—C9—H9B | 110.1 (11) |
| C6—C5—C4 | 117.35 (11) | C11—C10—C9 | 177.63 (12) |
| C6—C5—H5 | 120.9 (8) | C10—C11—H11 | 176.1 (9) |
| C4—C5—H5 | 121.7 (8) | ||
| C7—N2—C1—C2 | 178.91 (11) | C2—C1—C6—C5 | −0.69 (15) |
| C9—N2—C1—C2 | 4.89 (17) | N2—C1—C6—C5 | 178.96 (9) |
| C7—N2—C1—C6 | −0.69 (11) | C2—C1—C6—N1 | −179.67 (9) |
| C9—N2—C1—C6 | −174.72 (9) | N2—C1—C6—N1 | −0.02 (11) |
| N2—C1—C2—C3 | −179.33 (10) | C6—N1—C7—O1 | 179.51 (10) |
| C6—C1—C2—C3 | 0.23 (15) | C8—N1—C7—O1 | 0.13 (17) |
| C1—C2—C3—C4 | 0.37 (16) | C6—N1—C7—N2 | −1.13 (11) |
| C2—C3—C4—C5 | −0.54 (18) | C8—N1—C7—N2 | 179.49 (9) |
| C3—C4—C5—C6 | 0.08 (17) | C1—N2—C7—O1 | −179.51 (10) |
| C4—C5—C6—N1 | 179.20 (11) | C9—N2—C7—O1 | −5.31 (16) |
| C4—C5—C6—C1 | 0.52 (15) | C1—N2—C7—N1 | 1.12 (11) |
| C7—N1—C6—C5 | −178.10 (11) | C9—N2—C7—N1 | 175.32 (9) |
| C8—N1—C6—C5 | 1.27 (18) | C7—N2—C9—C10 | −111.11 (11) |
| C7—N1—C6—C1 | 0.72 (11) | C1—N2—C9—C10 | 62.16 (13) |
| C8—N1—C6—C1 | −179.91 (9) |
| H··· | ||||
| C3—H3···O1ix | 1.005 (15) | 2.566 (15) | 3.4885 (15) | 152.6 (11) |
| C8—H8 | 1.004 (16) | 2.626 (15) | 3.5413 (13) | 151.1 (12) |
| C9—H9 | 0.978 (15) | 2.347 (15) | 3.3198 (14) | 172.9 (12) |
| C11—H11···O1vii | 1.010 (15) | 2.181 (15) | 3.1569 (15) | 162.1 (12) |