| Literature DB >> 31871758 |
Abdelkader Ben Ali1, Youness El Bakri2, Chin-Hung Lai3,4, Jihad Sebhaoui2, Lhoussaine El Ghayati2, El Mokhtar Essassi2, Joel T Mague5.
Abstract
In the title mol-ecule, C13H16N4O3, the mean planes of the phenyl and triazole rings are nearly perpendicular to one another as a result of the intra-molecular C-H⋯O and C-H⋯π(ring) inter-actions. In the crystal, layers parallel to (101) are generated by O-H⋯N, N-H⋯O and N-H⋯N hydrogen bonds. The layers are connected by inversion-related pairs of C-H⋯O hydrogen bonds. The experimental mol-ecular structure is close to the gas-phase geometry-optimized structure calculated by DFT methods. Hirshfeld surface analysis indicates that the most important inter-action involving hydrogen in the title compound is the H⋯H contact. The contribution of the H⋯O, H⋯N, and H⋯H contacts are 13.6, 16.1, and 54.6%, respectively. © Ben Ali et al. 2019.Entities:
Keywords: C—H⋯π(ring) interaction; Hirshfeld surface analysis; computational chemistry; crystal structure; hydrogen bond; triazole
Year: 2019 PMID: 31871758 PMCID: PMC6895933 DOI: 10.1107/S2056989019015743
Source DB: PubMed Journal: Acta Crystallogr E Crystallogr Commun
Hydrogen-bond geometry (Å, °)
Cg1 is the centroid of the triazole ring.
|
|
| H⋯ |
|
|
|---|---|---|---|---|
| O1—H1⋯N3i | 0.881 (18) | 1.887 (18) | 2.7417 (12) | 162.9 (16) |
| N4—H4 | 0.887 (16) | 2.182 (17) | 3.0317 (14) | 160.2 (13) |
| N4—H4 | 0.898 (18) | 2.127 (18) | 3.0066 (15) | 166.1 (15) |
| C2—H2⋯O1 | 0.954 (16) | 2.257 (16) | 2.8665 (14) | 120.9 (12) |
| C12—H12 | 1.000 (15) | 2.569 (15) | 3.4225 (15) | 143.2 (11) |
| C5—H5⋯ | 0.982 (14) | 2.856 (14) | 3.4816 (13) | 122.3 (10) |
Symmetry codes: (i) ; (ii) ; (iii) ; (iv) .
Figure 1The title molecule with the labelling scheme and 50% probability displacement ellipsoids. The intramolecular C—H⋯O hydrogen bond is shown by a black dashed line while the C—H⋯π(ring) interaction is shown by a green dashed line.
Figure 2The packing viewed along the b-axis direction. O—H⋯N, N—H⋯O, N—H⋯N and C—H⋯O hydrogen bonds are shown, respectively, by red, light-blue, orange and black dashed lines.
Figure 3The B3LYP-optimized geometry (Å) of the title compound.
Bond lengths and angles (Å, °) in the B3LYP-optimized and the X-ray structures
| B3LYP | X-ray | B3LYP | X-ray | ||
|---|---|---|---|---|---|
| N1—C1 | 1.365 | 1.3648 (15) | O1—C10 | 1.399 | 1.3968 (13) |
| N1—C2 | 1.321 | 1.3242 (15) | O2—C11 | 1.210 | 1.2079 (14) |
| N2—C3 | 1.459 | 1.4609 (13) | O3—C11 | 1.329 | 1.3277 (14) |
| N2—C22 | 1.354 | 1.3319 (15) | O3—C12 | 1.447 | 1.4697 (13) |
| N2—N3 | 1.364 | 1.3794 (13) | C4—C9 | 1.403 | 1.3992 (16) |
| N3—C1 | 1.328 | 1.3288 (14) | C8—C7 | 1.397 | 1.380 (2) |
| N4—C1 | 1.377 | 1.3610 (15) | C8—C9 | 1.398 | 1.3867 (18) |
| C3—C4 | 1.523 | 1.5171 (15) | C10—C11 | 1.530 | 1.5278 (15) |
| C3—C10 | 1.551 | 1.5522 (15) | |||
| C2—N2—N3 | 109.4 | 108.99 (9) | N1—C1—N3 | 114.9 | 114.34 (10) |
| O2—C11—O3 | 125.0 | 125.05 (10) | C10—C11—O3 | 113.4 | 111.04 (9) |
Figure 4The d norm Hirshfeld surface of the title compound (red: negative, white: zero, blue: positive; scale: −0.6530 to 1.3260 a.u.).
Figure 5The two-dimensional fingerprint plots of the title compound (a) all, and delineated into (b) H⋯N, (c) H⋯O and (d) H⋯H contacts.
Experimental details
| Crystal data | |
| Chemical formula | C13H16N4O3 |
|
| 276.30 |
| Crystal system, space group | Monoclinic, |
| Temperature (K) | 150 |
|
| 8.4766 (2), 9.4841 (2), 16.9904 (3) |
| β (°) | 94.308 (1) |
|
| 1362.05 (5) |
|
| 4 |
| Radiation type | Cu |
| μ (mm−1) | 0.82 |
| Crystal size (mm) | 0.34 × 0.22 × 0.09 |
| Data collection | |
| Diffractometer | Bruker D8 VENTURE PHOTON 100 CMOS |
| Absorption correction | Multi-scan ( |
|
| 0.83, 0.93 |
| No. of measured, independent and observed [ | 10203, 2718, 2485 |
|
| 0.027 |
| (sin θ/λ)max (Å−1) | 0.625 |
| Refinement | |
|
| 0.033, 0.084, 1.05 |
| No. of reflections | 2718 |
| No. of parameters | 246 |
| H-atom treatment | All H-atom parameters refined |
| Δρmax, Δρmin (e Å−3) | 0.22, −0.16 |
Computer programs: APEX3 and SAINT (Bruker, 2016 ▸), SHELXT (Sheldrick, 2015a ▸), SHELXL2018 (Sheldrick, 2015b ▸), DIAMOND (Brandenburg & Putz, 2012 ▸) and SHELXTL (Sheldrick, 2008 ▸).
| C13H16N4O3 | |
| Monoclinic, | Cu |
| Cell parameters from 8615 reflections | |
| θ = 2.6–74.5° | |
| µ = 0.82 mm−1 | |
| β = 94.308 (1)° | |
| Thick plate, colourless | |
| 0.34 × 0.22 × 0.09 mm |
| Bruker D8 VENTURE PHOTON 100 CMOS diffractometer | 2718 independent reflections |
| Radiation source: INCOATEC IµS micro–focus source | 2485 reflections with |
| Mirror monochromator | |
| Detector resolution: 10.4167 pixels mm-1 | θmax = 74.5°, θmin = 5.2° |
| ω scans | |
| Absorption correction: multi-scan ( | |
| 10203 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 | |
| 2718 reflections | Δρmax = 0.22 e Å−3 |
| 246 parameters | Δρmin = −0.16 e Å−3 |
| 0 restraints | Extinction correction: |
| Primary atom site location: dual | Extinction coefficient: 0.0057 (5) |
| 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 | 0.91699 (9) | 0.36786 (8) | 0.32916 (5) | 0.02713 (19) | |
| H1 | 0.835 (2) | 0.3191 (18) | 0.3429 (10) | 0.051 (5)* | |
| O2 | 0.81808 (10) | 0.45251 (9) | 0.47136 (5) | 0.0329 (2) | |
| O3 | 0.85502 (10) | 0.68009 (8) | 0.44013 (4) | 0.0308 (2) | |
| N1 | 0.97355 (13) | 0.50581 (12) | 0.09965 (6) | 0.0373 (3) | |
| N2 | 0.85183 (11) | 0.57435 (10) | 0.20247 (5) | 0.0263 (2) | |
| N3 | 0.81168 (11) | 0.67258 (10) | 0.14453 (5) | 0.0265 (2) | |
| N4 | 0.88970 (15) | 0.69505 (13) | 0.01404 (6) | 0.0382 (3) | |
| H4A | 0.8193 (19) | 0.7639 (17) | 0.0066 (9) | 0.039 (4)* | |
| H4B | 0.917 (2) | 0.6404 (18) | −0.0258 (10) | 0.049 (4)* | |
| C1 | 0.88946 (13) | 0.62675 (12) | 0.08448 (6) | 0.0286 (3) | |
| C2 | 0.94526 (15) | 0.47729 (14) | 0.17358 (7) | 0.0346 (3) | |
| H2 | 0.9802 (18) | 0.3965 (17) | 0.2035 (9) | 0.043 (4)* | |
| C3 | 0.78317 (13) | 0.58436 (12) | 0.27861 (6) | 0.0246 (2) | |
| H3 | 0.7800 (16) | 0.6852 (14) | 0.2914 (8) | 0.027 (3)* | |
| C4 | 0.61677 (13) | 0.52484 (12) | 0.27637 (6) | 0.0266 (2) | |
| C5 | 0.55667 (14) | 0.43446 (13) | 0.21732 (7) | 0.0315 (3) | |
| H5 | 0.6185 (16) | 0.4141 (14) | 0.1720 (8) | 0.030 (3)* | |
| C6 | 0.40816 (16) | 0.37325 (15) | 0.22196 (8) | 0.0409 (3) | |
| H6 | 0.372 (2) | 0.3122 (18) | 0.1811 (10) | 0.051 (4)* | |
| C7 | 0.31994 (16) | 0.40186 (17) | 0.28540 (9) | 0.0460 (3) | |
| H7 | 0.220 (2) | 0.3540 (19) | 0.2888 (10) | 0.056 (5)* | |
| C8 | 0.37591 (15) | 0.49637 (17) | 0.34260 (8) | 0.0436 (3) | |
| H8 | 0.311 (2) | 0.5198 (18) | 0.3888 (10) | 0.056 (5)* | |
| C9 | 0.52284 (14) | 0.55881 (15) | 0.33796 (7) | 0.0349 (3) | |
| H9 | 0.5614 (19) | 0.6306 (17) | 0.3805 (9) | 0.045 (4)* | |
| C10 | 0.89794 (13) | 0.51219 (11) | 0.34175 (6) | 0.0250 (2) | |
| H10 | 1.0024 (15) | 0.5580 (13) | 0.3377 (7) | 0.025 (3)* | |
| C11 | 0.85120 (13) | 0.54268 (12) | 0.42518 (6) | 0.0263 (2) | |
| C12 | 0.81350 (16) | 0.72230 (14) | 0.51908 (7) | 0.0344 (3) | |
| H12A | 0.6980 (19) | 0.7131 (16) | 0.5195 (9) | 0.041 (4)* | |
| H12B | 0.8654 (17) | 0.6543 (16) | 0.5579 (9) | 0.039 (4)* | |
| C13 | 0.8721 (2) | 0.86853 (16) | 0.53308 (10) | 0.0515 (4) | |
| H13A | 0.839 (2) | 0.905 (2) | 0.5884 (13) | 0.077 (6)* | |
| H13B | 0.821 (2) | 0.932 (2) | 0.4918 (12) | 0.076 (6)* | |
| H13C | 1.000 (3) | 0.870 (2) | 0.5340 (11) | 0.071 (6)* |
| O1 | 0.0277 (4) | 0.0259 (4) | 0.0285 (4) | 0.0019 (3) | 0.0070 (3) | 0.0016 (3) |
| O2 | 0.0381 (5) | 0.0354 (4) | 0.0258 (4) | −0.0044 (3) | 0.0064 (3) | 0.0033 (3) |
| O3 | 0.0387 (5) | 0.0307 (4) | 0.0232 (4) | 0.0009 (3) | 0.0049 (3) | −0.0016 (3) |
| N1 | 0.0413 (6) | 0.0472 (6) | 0.0247 (5) | 0.0175 (5) | 0.0113 (4) | 0.0041 (4) |
| N2 | 0.0274 (5) | 0.0307 (5) | 0.0214 (4) | 0.0049 (4) | 0.0073 (4) | 0.0028 (4) |
| N3 | 0.0308 (5) | 0.0279 (5) | 0.0217 (4) | 0.0019 (4) | 0.0077 (4) | 0.0030 (4) |
| N4 | 0.0515 (7) | 0.0397 (6) | 0.0250 (5) | 0.0125 (5) | 0.0141 (5) | 0.0052 (4) |
| C1 | 0.0296 (6) | 0.0335 (6) | 0.0235 (5) | 0.0025 (4) | 0.0072 (4) | 0.0005 (4) |
| C2 | 0.0376 (7) | 0.0414 (7) | 0.0257 (6) | 0.0159 (5) | 0.0087 (5) | 0.0035 (5) |
| C3 | 0.0279 (5) | 0.0272 (5) | 0.0196 (5) | 0.0034 (4) | 0.0079 (4) | 0.0009 (4) |
| C4 | 0.0249 (5) | 0.0307 (6) | 0.0244 (5) | 0.0052 (4) | 0.0039 (4) | 0.0050 (4) |
| C5 | 0.0298 (6) | 0.0357 (6) | 0.0289 (6) | 0.0053 (5) | 0.0013 (5) | 0.0023 (5) |
| C6 | 0.0333 (7) | 0.0462 (8) | 0.0419 (7) | −0.0008 (5) | −0.0065 (5) | 0.0003 (6) |
| C7 | 0.0253 (6) | 0.0625 (9) | 0.0501 (8) | −0.0028 (6) | 0.0026 (6) | 0.0103 (7) |
| C8 | 0.0279 (6) | 0.0658 (9) | 0.0382 (7) | 0.0027 (6) | 0.0099 (5) | 0.0052 (6) |
| C9 | 0.0286 (6) | 0.0480 (7) | 0.0290 (6) | 0.0047 (5) | 0.0074 (5) | 0.0007 (5) |
| C10 | 0.0246 (5) | 0.0270 (5) | 0.0237 (5) | 0.0001 (4) | 0.0042 (4) | 0.0005 (4) |
| C11 | 0.0251 (5) | 0.0298 (6) | 0.0237 (5) | −0.0004 (4) | 0.0013 (4) | 0.0005 (4) |
| C12 | 0.0376 (7) | 0.0423 (7) | 0.0236 (6) | 0.0048 (5) | 0.0043 (5) | −0.0059 (5) |
| C13 | 0.0712 (11) | 0.0410 (8) | 0.0414 (8) | 0.0027 (7) | −0.0013 (7) | −0.0099 (6) |
| O1—C10 | 1.3968 (13) | C4—C9 | 1.3992 (16) |
| O1—H1 | 0.881 (18) | C5—C6 | 1.3939 (18) |
| O2—C11 | 1.2079 (14) | C5—H5 | 0.982 (14) |
| O3—C11 | 1.3277 (14) | C6—C7 | 1.384 (2) |
| O3—C12 | 1.4679 (13) | C6—H6 | 0.938 (17) |
| N1—C2 | 1.3242 (15) | C7—C8 | 1.380 (2) |
| N1—C1 | 1.3648 (15) | C7—H7 | 0.963 (18) |
| N2—C2 | 1.3319 (15) | C8—C9 | 1.3867 (18) |
| N2—N3 | 1.3794 (13) | C8—H8 | 1.017 (18) |
| N2—C3 | 1.4609 (13) | C9—H9 | 1.028 (16) |
| N3—C1 | 1.3288 (14) | C10—C11 | 1.5278 (15) |
| N4—C1 | 1.3610 (15) | C10—H10 | 0.993 (13) |
| N4—H4A | 0.887 (16) | C12—C13 | 1.486 (2) |
| N4—H4B | 0.898 (18) | C12—H12A | 0.983 (16) |
| C2—H2 | 0.954 (16) | C12—H12B | 1.000 (15) |
| C3—C4 | 1.5171 (15) | C13—H13A | 1.06 (2) |
| C3—C10 | 1.5522 (15) | C13—H13B | 1.00 (2) |
| C3—H3 | 0.982 (14) | C13—H13C | 1.08 (2) |
| C4—C5 | 1.3871 (17) | ||
| C10—O1—H1 | 111.7 (11) | C8—C7—C6 | 119.90 (13) |
| C11—O3—C12 | 116.00 (9) | C8—C7—H7 | 121.3 (10) |
| C2—N1—C1 | 102.80 (10) | C6—C7—H7 | 118.8 (10) |
| C2—N2—N3 | 108.99 (9) | C7—C8—C9 | 120.01 (13) |
| C2—N2—C3 | 131.21 (10) | C7—C8—H8 | 120.6 (10) |
| N3—N2—C3 | 119.65 (8) | C9—C8—H8 | 119.4 (10) |
| C1—N3—N2 | 102.53 (9) | C8—C9—C4 | 120.54 (12) |
| C1—N4—H4A | 115.5 (10) | C8—C9—H9 | 118.8 (9) |
| C1—N4—H4B | 114.0 (11) | C4—C9—H9 | 120.6 (9) |
| H4A—N4—H4B | 121.9 (14) | O1—C10—C11 | 111.63 (9) |
| N3—C1—N4 | 123.58 (11) | O1—C10—C3 | 113.57 (9) |
| N3—C1—N1 | 114.34 (10) | C11—C10—C3 | 111.41 (9) |
| N4—C1—N1 | 122.06 (10) | O1—C10—H10 | 107.7 (7) |
| N1—C2—N2 | 111.32 (11) | C11—C10—H10 | 106.0 (7) |
| N1—C2—H2 | 126.7 (9) | C3—C10—H10 | 106.0 (7) |
| N2—C2—H2 | 121.9 (9) | O2—C11—O3 | 125.05 (10) |
| N2—C3—C4 | 112.65 (9) | O2—C11—C10 | 123.90 (10) |
| N2—C3—C10 | 108.22 (8) | O3—C11—C10 | 111.04 (9) |
| C4—C3—C10 | 112.74 (9) | O3—C12—C13 | 107.49 (11) |
| N2—C3—H3 | 106.2 (8) | O3—C12—H12A | 106.8 (9) |
| C4—C3—H3 | 109.1 (8) | C13—C12—H12A | 113.7 (9) |
| C10—C3—H3 | 107.6 (8) | O3—C12—H12B | 107.6 (9) |
| C5—C4—C9 | 118.98 (11) | C13—C12—H12B | 111.8 (9) |
| C5—C4—C3 | 122.57 (10) | H12A—C12—H12B | 109.1 (12) |
| C9—C4—C3 | 118.41 (10) | C12—C13—H13A | 110.1 (12) |
| C4—C5—C6 | 120.04 (12) | C12—C13—H13B | 109.0 (12) |
| C4—C5—H5 | 120.0 (8) | H13A—C13—H13B | 107.4 (17) |
| C6—C5—H5 | 120.0 (8) | C12—C13—H13C | 109.9 (11) |
| C7—C6—C5 | 120.36 (13) | H13A—C13—H13C | 108.1 (15) |
| C7—C6—H6 | 122.1 (10) | H13B—C13—H13C | 112.4 (16) |
| C5—C6—H6 | 117.6 (10) | ||
| C2—N2—N3—C1 | −1.38 (12) | C3—C4—C5—C6 | 174.36 (11) |
| C3—N2—N3—C1 | −177.37 (10) | C4—C5—C6—C7 | −0.12 (19) |
| N2—N3—C1—N4 | −177.46 (11) | C5—C6—C7—C8 | 2.9 (2) |
| N2—N3—C1—N1 | 1.03 (13) | C6—C7—C8—C9 | −2.3 (2) |
| C2—N1—C1—N3 | −0.29 (15) | C7—C8—C9—C4 | −1.2 (2) |
| C2—N1—C1—N4 | 178.23 (12) | C5—C4—C9—C8 | 3.98 (18) |
| C1—N1—C2—N2 | −0.65 (15) | C3—C4—C9—C8 | −173.77 (11) |
| N3—N2—C2—N1 | 1.33 (15) | N2—C3—C10—O1 | −63.92 (11) |
| C3—N2—C2—N1 | 176.70 (11) | C4—C3—C10—O1 | 61.36 (12) |
| C2—N2—C3—C4 | −94.74 (14) | N2—C3—C10—C11 | 168.99 (9) |
| N3—N2—C3—C4 | 80.22 (12) | C4—C3—C10—C11 | −65.74 (12) |
| C2—N2—C3—C10 | 30.59 (16) | C12—O3—C11—O2 | −0.70 (16) |
| N3—N2—C3—C10 | −154.44 (9) | C12—O3—C11—C10 | −179.49 (9) |
| N2—C3—C4—C5 | 18.19 (15) | O1—C10—C11—O2 | −7.54 (15) |
| C10—C3—C4—C5 | −104.64 (12) | C3—C10—C11—O2 | 120.60 (12) |
| N2—C3—C4—C9 | −164.15 (10) | O1—C10—C11—O3 | 171.26 (9) |
| C10—C3—C4—C9 | 73.02 (13) | C3—C10—C11—O3 | −60.59 (12) |
| C9—C4—C5—C6 | −3.29 (17) | C11—O3—C12—C13 | 162.57 (11) |
| H··· | ||||
| O1—H1···N3i | 0.881 (18) | 1.887 (18) | 2.7417 (12) | 162.9 (16) |
| N4—H4 | 0.887 (16) | 2.182 (17) | 3.0317 (14) | 160.2 (13) |
| N4—H4 | 0.898 (18) | 2.127 (18) | 3.0066 (15) | 166.1 (15) |
| C2—H2···O1 | 0.954 (16) | 2.257 (16) | 2.8665 (14) | 120.9 (12) |
| C12—H12 | 1.000 (15) | 2.569 (15) | 3.4225 (15) | 143.2 (11) |
| C5—H5··· | 0.982 (14) | 2.856 (14) | 3.4816 (13) | 122.3 (10) |