| Literature DB >> 31871761 |
Yvon Bibila Mayaya Bisseyou1, Mahama Ouattara2, Pénétjiligué Adama Soro1, R C A Yao-Kakou1, Abodou Jules Tenon1.
Abstract
In the title hydrated hybrid compound C14H14N2OS2·H2O, the planar imidazo[1,2-a]pyridine ring system is linked to the 1,3-di-thiol-ane moiety by an enone bridge. The atoms of the C-C bond in the 1,3-di-thiol-ane ring are disordered over two positions with occupancies of 0.579 (14) and 0.421 (14) and both disordered rings adopt a half-chair conformation. The oxygen atom of the enone bridge is involved in a weak intra-molecular C-H⋯O hydrogen bond, which generates an S(6) graph-set motif. In the crystal, the hybrid mol-ecules are associated in R 2 2(14) dimeric units by weak C-H⋯O inter-actions. O-H⋯O hydrogen bonds link the water mol-ecules, forming infinite self-assembled chains along the b-axis direction to which the dimers are connected via O-H⋯N hydrogen bonding. Analysis of inter-molecular contacts using Hirshfeld surface analysis and contact enrichment ratio descriptors indicate that hydrogen bonds induced by water mol-ecules are the main driving force in the crystal packing formation. © Bibila Mayaya Bisseyou et al. 2019.Entities:
Keywords: Hirshfeld surface analysis; crystal structure; enrichment contact; hybrid molecule; hydrogen bond
Year: 2019 PMID: 31871761 PMCID: PMC6895949 DOI: 10.1107/S2056989019015755
Source DB: PubMed Journal: Acta Crystallogr E Crystallogr Commun
Figure 1Molecular structure of the title compound with atomic labelling. Displacement ellipsoids are drawn at the 50% probability level. H atoms are shown as spheres of arbitrary radius. The minor component of the disordered moiety is drawn with open bonds. Hydrogen bonds are shown as dashed lines.
Figure 2An overlay diagram of the title structure (red) with 1-(2-methylimidazo[1,2–a]pyridin-3-yl)-3,3-bis(methylsulfanyl)prop-2-enone structure (blue). H atoms and disordered moiety are excluded for clarity.
Hydrogen-bond geometry (Å, °)
|
|
| H⋯ |
|
|
|---|---|---|---|---|
| C6—H6⋯O1 | 0.93 | 2.24 | 2.812 (3) | 119 |
| O2 | 0.97 (1) | 1.99 (2) | 2.949 (3) | 170 (6) |
| C5—H5⋯O1i | 0.93 | 2.71 | 3.560 (3) | 153 |
| O2 | 0.97 (1) | 1.92 (2) | 2.837 (2) | 157 (4) |
| C12 | 0.97 | 2.66 | 3.577 (11) | 157 |
Symmetry codes: (i) ; (ii) ; (iii) .
Figure 3A partial packing diagram for the title compound showing the (14) graph-set motif generated by weak C—H⋯O hydrogen bonds plotted as dashed lines. H atoms not involved in the hydrogen bonding have been omitted for clarity.
Figure 4A view along b axis showing hydrogen-bonded self-assembled chain of water molecules with the hydrogen bonds between the water and host molecules shown as dashed lines. For clarity, the atoms in the host molecules not involved in hydrogen bonds have been omitted.
Figure 5A view along the c axis of the crystal packing, showing the stacking of the host molecules, with hydrogen bonds between water molecules, and between water molecules and host molecules (dashed lines). For clarity, weak hydrogen contacts and some H atoms not involved in hydrogen bonding have been omitted.
Figure 6The three-dimensional Hirshfeld surface representation of the title compound plotted over d norm in the range −0.5086 to 1.2492 a.u.
Figure 7The three-dimensional Hirshfeld surface mapped over shape-index.
Figure 8(a) The overall two-dimensional fingerprint plot for title compound and (b)–(g) those delineated into H⋯H, S⋯H/H⋯S, C⋯H/H⋯C, O⋯H/H⋯O, N⋯H/H⋯N, C⋯C/C⋯C contacts, respectively.
Intermolecular contacts and enrichment ratios (%) on the Hirshfeld surface by atom type
The top part of the table gives the surface contribution S of each chemical type X to the Hirshfeld surface. The next part shows the percentage contributions C of the actual contact types to the surface and the lower part of the table shows the E enrichment contact ratios. E ratios larger than unity are enriched contacts and those lower than unity are impoverished.
| Atom type | Ho | C | N | O | S | Hc | Ow |
|---|---|---|---|---|---|---|---|
| Surface | 7.70 | 23.26 | 3.69 | 2.77 | 14.46 | 43.96 | 4.17 |
| Contact | |||||||
| Ho | |||||||
| C | 9.40 | ||||||
| N | 3.20 | ||||||
| O | 0.00 | 3.00 | |||||
| S | 0.70 | 9.00 | 2.00 | ||||
| Hc | 8.40 | 15.00 | 2.40 | 3.00 | 17.60 | 18.70 | |
| O | 3.50 | 0.00 | 0.00 | 0.00 | 0.00 | 4.10 | 0.00 |
| Enrichment | |||||||
| O | 5.19 | ||||||
| N | 5.03 | ||||||
| S | 0.27 | 1.33 | 1.58 | ||||
| C | 0.00 | 1.85 | 0.00 | 2.08 | |||
| Hc | 1.19 | 0.76 | 0.72 | 0.98 | 1.35 | 1.00 | 1.14 |
Experimental details
| Crystal data | |
| Chemical formula | C14H14N2OS2·H2O |
|
| 308.41 |
| Crystal system, space group | Tetragonal, |
| Temperature (K) | 293 |
|
| 28.3247 (7), 7.2820 (2) |
|
| 5842.3 (3) |
|
| 16 |
| Radiation type | Mo |
| μ (mm−1) | 0.37 |
| Crystal size (mm) | 0.35 × 0.20 × 0.15 |
| Data collection | |
| Diffractometer | Nonius KappaCCD |
| Absorption correction | Multi-scan (Blessing, 1995 |
|
| 0.927, 0.963 |
| No. of measured, independent and observed [ | 22803, 3672, 2765 |
|
| 0.044 |
| Refinement | |
|
| 0.036, 0.102, 1.04 |
| No. of reflections | 3672 |
| No. of parameters | 211 |
| No. of restraints | 43 |
| H-atom treatment | H atoms treated by a mixture of independent and constrained refinement |
| Δρmax, Δρmin (e Å−3) | 0.22, −0.29 |
| Absolute structure | Flack |
| Absolute structure parameter | −0.01 (4) |
Computer programs: COLLECT (Nonius, 1997 ▸), DENZO/SCALEPACK (Otwinowski & Minor, 1997 ▸), SHELXS97 (Sheldrick, 2008 ▸), SHELXL2014 (Sheldrick, 2015 ▸), ORTEP-3 for Windows and WinGX (Farrugia, 2012 ▸), PLATON (Spek, 2009 ▸), OLEX2 (Dolomanov et al., 2009 ▸) and publCIF (Westrip, 2010 ▸).
| C14H14N2OS2·H2O | |
| Mo | |
| Tetragonal, | Cell parameters from 22217 reflections |
| θ = 1.4–30.0° | |
| µ = 0.37 mm−1 | |
| Parallelepiped, brown | |
| 0.35 × 0.20 × 0.15 mm |
| Nonius KappaCCD diffractometer | 2765 reflections with |
| phi and ω scan | |
| Absorption correction: multi-scan (Blessing, 1995) | θmax = 30.0°, θmin = 2.0° |
| 22803 measured reflections | |
| 3672 independent reflections |
| Refinement on | H atoms treated by a mixture of independent and constrained refinement |
| Least-squares matrix: full | |
| (Δ/σ)max = 0.001 | |
| Δρmax = 0.22 e Å−3 | |
| Δρmin = −0.29 e Å−3 | |
| 3672 reflections | Extinction correction: SHELXL2014 (Sheldrick, 2015), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4 |
| 211 parameters | Extinction coefficient: 0.0024 (6) |
| 43 restraints | Absolute structure: Flack |
| Hydrogen site location: mixed | Absolute structure parameter: −0.01 (4) |
| 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) | |||||
| S1 | 0.38738 (2) | 0.12434 (2) | 0.85051 (16) | 0.0539 (2) | |
| S2 | 0.39148 (2) | 0.22768 (2) | 0.85799 (17) | 0.0626 (2) | |
| O1 | 0.47583 (6) | 0.09202 (6) | 0.8604 (5) | 0.0651 (6) | |
| N2 | 0.57546 (6) | 0.09070 (6) | 0.8622 (5) | 0.0402 (4) | |
| N1 | 0.62625 (6) | 0.15130 (7) | 0.8534 (4) | 0.0419 (4) | |
| C1 | 0.58159 (8) | 0.16831 (8) | 0.8543 (6) | 0.0413 (5) | |
| C2 | 0.62206 (7) | 0.10414 (8) | 0.8578 (5) | 0.0392 (5) | |
| C3 | 0.65720 (8) | 0.06930 (8) | 0.8584 (5) | 0.0445 (5) | |
| H3 | 0.6888 | 0.0781 | 0.8543 | 0.053* | |
| C4 | 0.64537 (8) | 0.02258 (8) | 0.8648 (6) | 0.0474 (6) | |
| C5 | 0.59688 (9) | 0.01044 (9) | 0.8715 (6) | 0.0559 (8) | |
| H5 | 0.5883 | −0.0212 | 0.8775 | 0.067* | |
| C6 | 0.56270 (9) | 0.04398 (9) | 0.8694 (7) | 0.0539 (7) | |
| H6 | 0.5310 | 0.0354 | 0.8727 | 0.065* | |
| C7 | 0.54822 (8) | 0.13206 (7) | 0.8609 (5) | 0.0414 (5) | |
| C8 | 0.49691 (9) | 0.13052 (7) | 0.8601 (7) | 0.0451 (5) | |
| C9 | 0.47020 (8) | 0.17414 (8) | 0.8611 (6) | 0.0480 (6) | |
| H9 | 0.4863 | 0.2028 | 0.8650 | 0.058* | |
| C10 | 0.42253 (8) | 0.17425 (8) | 0.8563 (6) | 0.0432 (5) | |
| C11A | 0.3325 (3) | 0.1573 (3) | 0.8856 (14) | 0.0577 (19) | 0.579 (14) |
| H11A | 0.3064 | 0.1402 | 0.8309 | 0.069* | 0.579 (14) |
| H11B | 0.3264 | 0.1604 | 1.0161 | 0.069* | 0.579 (14) |
| C12A | 0.3362 (3) | 0.2057 (3) | 0.7998 (15) | 0.0585 (18) | 0.579 (14) |
| H12A | 0.3115 | 0.2262 | 0.8466 | 0.070* | 0.579 (14) |
| H12B | 0.3330 | 0.2035 | 0.6674 | 0.070* | 0.579 (14) |
| C11B | 0.3315 (4) | 0.1526 (4) | 0.792 (2) | 0.054 (2) | 0.421 (14) |
| H11C | 0.3288 | 0.1570 | 0.6607 | 0.065* | 0.421 (14) |
| H11D | 0.3051 | 0.1337 | 0.8344 | 0.065* | 0.421 (14) |
| C12B | 0.3324 (4) | 0.1995 (4) | 0.8896 (19) | 0.058 (3) | 0.421 (14) |
| H12C | 0.3262 | 0.1950 | 1.0194 | 0.069* | 0.421 (14) |
| H12D | 0.3080 | 0.2199 | 0.8400 | 0.069* | 0.421 (14) |
| C13 | 0.57437 (9) | 0.22043 (8) | 0.8531 (7) | 0.0545 (6) | |
| H13A | 0.6044 | 0.2360 | 0.8444 | 0.082* | |
| H13B | 0.5589 | 0.2299 | 0.9644 | 0.082* | |
| H13C | 0.5552 | 0.2290 | 0.7496 | 0.082* | |
| C14 | 0.68205 (9) | −0.01559 (9) | 0.8647 (6) | 0.0587 (7) | |
| H14A | 0.7128 | −0.0017 | 0.8536 | 0.088* | |
| H14B | 0.6766 | −0.0364 | 0.7629 | 0.088* | |
| H14C | 0.6802 | −0.0331 | 0.9773 | 0.088* | |
| O2W | 0.70594 (8) | 0.21823 (9) | 0.8393 (5) | 0.0750 (7) | |
| H1W | 0.7256 (13) | 0.2168 (16) | 0.948 (4) | 0.097 (15)* | |
| H2W | 0.6805 (13) | 0.1956 (14) | 0.859 (9) | 0.131 (19)* |
| S1 | 0.0382 (3) | 0.0429 (3) | 0.0806 (5) | 0.0006 (2) | 0.0015 (4) | 0.0037 (5) |
| S2 | 0.0479 (4) | 0.0417 (3) | 0.0982 (6) | 0.0122 (3) | −0.0040 (5) | 0.0009 (5) |
| O1 | 0.0367 (9) | 0.0391 (9) | 0.1197 (18) | −0.0002 (7) | −0.0006 (14) | −0.0017 (14) |
| N2 | 0.0334 (9) | 0.0334 (9) | 0.0539 (11) | 0.0013 (7) | −0.0004 (12) | −0.0002 (12) |
| N1 | 0.0379 (10) | 0.0359 (10) | 0.0518 (11) | −0.0018 (7) | −0.0011 (13) | 0.0002 (13) |
| C1 | 0.0394 (12) | 0.0370 (11) | 0.0474 (13) | −0.0004 (9) | −0.0002 (16) | 0.0010 (15) |
| C2 | 0.0327 (11) | 0.0389 (11) | 0.0460 (13) | −0.0011 (8) | −0.0006 (14) | −0.0010 (15) |
| C3 | 0.0341 (11) | 0.0439 (12) | 0.0555 (14) | 0.0026 (9) | 0.0009 (14) | −0.0031 (15) |
| C4 | 0.0396 (12) | 0.0434 (12) | 0.0591 (16) | 0.0080 (9) | −0.0002 (16) | −0.0025 (15) |
| C5 | 0.0454 (13) | 0.0365 (13) | 0.086 (2) | 0.0029 (9) | 0.0000 (19) | −0.002 (2) |
| C6 | 0.0356 (12) | 0.0372 (12) | 0.089 (2) | −0.0026 (9) | 0.0004 (17) | 0.0012 (17) |
| C7 | 0.0361 (11) | 0.0348 (10) | 0.0532 (14) | 0.0037 (8) | −0.0006 (14) | 0.0014 (15) |
| C8 | 0.0355 (10) | 0.0414 (10) | 0.0583 (14) | 0.0024 (10) | −0.0007 (13) | 0.000 (2) |
| C9 | 0.0378 (11) | 0.0371 (11) | 0.0692 (16) | 0.0029 (9) | −0.0037 (17) | 0.0002 (15) |
| C10 | 0.0401 (11) | 0.0391 (11) | 0.0504 (13) | 0.0050 (10) | 0.0012 (18) | 0.0013 (15) |
| C11A | 0.035 (2) | 0.062 (3) | 0.075 (5) | −0.001 (2) | 0.003 (4) | −0.006 (4) |
| C12A | 0.042 (3) | 0.067 (4) | 0.066 (4) | 0.012 (3) | −0.005 (4) | −0.003 (3) |
| C11B | 0.035 (4) | 0.062 (4) | 0.066 (5) | 0.010 (3) | 0.006 (5) | −0.003 (5) |
| C12B | 0.043 (4) | 0.060 (5) | 0.070 (6) | 0.012 (3) | 0.009 (4) | −0.006 (5) |
| C13 | 0.0470 (13) | 0.0363 (12) | 0.0802 (19) | 0.0001 (10) | −0.0017 (18) | 0.0023 (18) |
| C14 | 0.0458 (13) | 0.0488 (14) | 0.082 (2) | 0.0125 (10) | 0.000 (2) | −0.005 (2) |
| O2W | 0.0606 (13) | 0.0720 (14) | 0.092 (2) | −0.0131 (11) | −0.0092 (16) | 0.0270 (17) |
| S1—C10 | 1.729 (3) | C1—C7 | 1.396 (3) |
| S1—C11B | 1.824 (11) | C1—C13 | 1.491 (3) |
| S1—C11A | 1.831 (8) | C2—C3 | 1.402 (3) |
| S2—C12A | 1.739 (8) | C3—C4 | 1.366 (3) |
| S2—C10 | 1.750 (2) | C4—C5 | 1.417 (3) |
| S2—C12B | 1.868 (12) | C4—C14 | 1.500 (3) |
| O1—C8 | 1.243 (3) | C5—C6 | 1.356 (3) |
| N2—C6 | 1.373 (3) | C7—C8 | 1.454 (3) |
| N2—C2 | 1.374 (3) | C8—C9 | 1.449 (3) |
| N2—C7 | 1.403 (3) | C9—C10 | 1.351 (3) |
| N1—C2 | 1.342 (3) | C11A—C12A | 1.509 (9) |
| N1—C1 | 1.354 (3) | C11B—C12B | 1.506 (10) |
| C10—S1—C11B | 98.4 (3) | C5—C4—C14 | 119.8 (2) |
| C10—S1—C11A | 93.9 (3) | C6—C5—C4 | 121.4 (2) |
| C12A—S2—C10 | 98.1 (3) | C5—C6—N2 | 119.2 (2) |
| C10—S2—C12B | 94.7 (4) | C1—C7—N2 | 104.01 (19) |
| C6—N2—C2 | 121.39 (19) | C1—C7—C8 | 134.3 (2) |
| C6—N2—C7 | 131.3 (2) | N2—C7—C8 | 121.7 (2) |
| C2—N2—C7 | 107.28 (19) | O1—C8—C9 | 119.8 (2) |
| C2—N1—C1 | 105.76 (18) | O1—C8—C7 | 120.4 (2) |
| N1—C1—C7 | 111.77 (19) | C9—C8—C7 | 119.8 (2) |
| N1—C1—C13 | 118.7 (2) | C10—C9—C8 | 121.6 (2) |
| C7—C1—C13 | 129.5 (2) | C9—C10—S1 | 125.03 (19) |
| N1—C2—N2 | 111.18 (19) | C9—C10—S2 | 120.27 (19) |
| N1—C2—C3 | 129.7 (2) | S1—C10—S2 | 114.69 (14) |
| N2—C2—C3 | 119.2 (2) | C12A—C11A—S1 | 110.3 (6) |
| C4—C3—C2 | 120.5 (2) | C11A—C12A—S2 | 106.6 (6) |
| C3—C4—C5 | 118.3 (2) | C12B—C11B—S1 | 105.2 (9) |
| C3—C4—C14 | 121.9 (2) | C11B—C12B—S2 | 109.6 (7) |
| H··· | ||||
| C6—H6···O1 | 0.93 | 2.24 | 2.812 (3) | 119 |
| O2 | 0.97 (1) | 1.99 (2) | 2.949 (3) | 170 (6) |
| C5—H5···O1i | 0.93 | 2.71 | 3.560 (3) | 153 |
| O2 | 0.97 (1) | 1.92 (2) | 2.837 (2) | 157 (4) |
| C12 | 0.97 | 2.66 | 3.577 (11) | 157 |