| Literature DB >> 31391998 |
Juhyeon Park1, Seung Heon Lee1, Myong Yong Choi1, Cheol Joo Moon1, Tae Ho Kim1.
Abstract
The title compound, C22H22N2O4S2, was synthesized by the reaction of 1,4,5,8-naphthalene-tetra-carb-oxy-lic dianhydride with 3-(methyl-sulfan-yl)propyl-amine. The whole mol-ecule is generated by an inversion operation of the asymmetric unit. This mol-ecule has an anti form with the terminal methyl-thio-propyl groups above and below the aromatic di-imide plane, where four intra-molecular C-H⋯O and C-H⋯S hydrogen bonds are present and the O⋯H⋯S angle is 100.8°. DFT calculations revealed slight differences between the solid state and gas phase structures. In the crystal, C-H⋯O and C-H⋯S hydrogen bonds link the mol-ecules into chains along the [2 direction. adjacent chains are inter-connected by π-π inter-actions, forming a two-dimensional network parallel to the (001) plane. Each two-dimensional layer is further packed in an ABAB sequence along the c-axis direction. Hirshfeld surface analysis shows that van der Waals inter-actions make important contributions to the inter-molecular contacts. The most important contacts found in the Hirshfeld surface analysis are H⋯H (44.2%), H⋯O/O⋯H (18.2%), H⋯C/C⋯H (14.4%), and H⋯S/S⋯H (10.2%).Entities:
Keywords: DFT calculations; Hirshfeld surface analysis.; crystal packing; crystal structure; hydrogen bonding; naphthalenetetracarboxylic diimide
Year: 2019 PMID: 31391998 PMCID: PMC6658963 DOI: 10.1107/S2056989019007771
Source DB: PubMed Journal: Acta Crystallogr E Crystallogr Commun
Figure 1The asymmetric unit of the title compound, with displacement ellipsoids drawn at the 50% probability level. H atoms are shown as small spheres of arbitrary radius and yellow and green dashed lines represent intramolecular C—H⋯S and C—H⋯O hydrogen bonds, respectively. Unlabelled atoms are generated by the symmetry operation (−x + 2, −y + 1, −z).
Hydrogen-bond geometry (Å, °)
|
|
| H⋯ |
|
|
|---|---|---|---|---|
| C4—H4 | 0.99 | 2.84 | 3.300 (2) | 109 |
| C4—H4 | 0.99 | 2.32 | 2.688 (3) | 101 |
| C10—H10⋯O1i | 0.95 | 2.39 | 3.316 (3) | 164 |
| C11—H11⋯S1ii | 0.95 | 2.86 | 3.779 (2) | 162 |
Symmetry codes: (i) ; (ii) .
Experimental and calculated bond lengths (Å)
| Bond | X-ray | B3LYP (6–311++G**) |
|---|---|---|
| O1—C5 | 1.210 (3) | 1.2158 |
| O2—C9 | 1.221 (3) | 1.2173 |
| N1—C4 | 1.471 (3) | 1.4779 |
| N1—C5 | 1.404 (3) | 1.4047 |
| N1—C9 | 1.394 (3) | 1.4029 |
| S1—C1 | 1.785 (3) | 1.8244 |
| S1—C2 | 1.803 (2) | 1.8399 |
| C2—C3 | 1.523 (3) | 1.5301 |
| C3—C4 | 1.521 (3) | 1.5341 |
| C5—C6 | 1.479 (3) | 1.4880 |
| C6—C7 | 1.408 (3) | 1.4135 |
| C7—C8 | 1.415 (3) | 1.4136 |
| C8—C9 | 1.478 (3) | 1.4877 |
| C6—C10 | 1.381 (3) | 1.3835 |
| C8—C11 | 1.373 (3) | 1.3835 |
Figure 2Atom-by-atom superimposition of the calculated structure (blue) using B3LYP/6–311++G** and the X-ray structure (green) for the title compound.
Figure 3Intermolecular C—H⋯S and C—H⋯O hydrogen bonds (yellow and green dashed lines) forming chains along the [20] direction with (11) and (10) motifs.
Figure 4A packing diagram for the title compound, showing the two-dimensional network formed by C—H⋯S and C—H⋯O hydrogen bonds (yellow and green dashed lines) and π–π interactions (black dashed lines). H atoms not involved in intermolecular interactions have been omitted for clarity.
Figure 5Packing diagrams of the title compound showing (a) the ABAB stacking pattern and (b) the two-dimensional structure.
Figure 6A view of the Hirshfeld surface of the title compound mapped over d norm, showing the H⋯S and H⋯O contacts of the intermolecular interactions using a fixed colour scale of −0.2580 (red) to 1.0789 (blue) a.u.
Figure 7(a) The full two-dimensional fingerprint plot for the title compound and those delineated into (b) H⋯H, (c) H⋯O/O⋯H, (d) H⋯C/C⋯H and (e) H⋯S/S⋯H contacts. The d i and d e values are the closest internal and external distances (in Å) from given points on the Hirshfeld surface contacts.
Percentage contributions of interatomic contacts to the Hirshfeld surface of the title compound.
| Contact | Percentage contribution |
|---|---|
| H⋯H | 44.2 |
| H⋯O/O⋯H | 18.3 |
| H⋯C/C⋯H | 14.4 |
| H⋯S/S⋯H | 10.2 |
| C⋯O/O⋯C | 5.6 |
| C⋯C | 4.5 |
| H⋯N/N⋯H | 1.4 |
| O⋯O | 0.5 |
| N⋯O/O⋯N | 0.4 |
| C⋯S/S⋯C | 0.4 |
Experimental details
| Crystal data | |
| Chemical formula | C22H22N2O4S2 |
|
| 442.53 |
| Crystal system, space group | Monoclinic, |
| Temperature (K) | 173 |
|
| 8.0500 (2), 4.9407 (1), 24.9626 (7) |
| β (°) | 94.333 (2) |
|
| 989.99 (4) |
|
| 2 |
| Radiation type | Mo |
| μ (mm−1) | 0.30 |
| Crystal size (mm) | 0.23 × 0.05 × 0.04 |
| Data collection | |
| Diffractometer | Bruker APEXII CCD |
| Absorption correction | Multi-scan ( |
|
| 0.676, 0.746 |
| No. of measured, independent and observed [ | 5641, 1732, 1360 |
|
| 0.046 |
| (sin θ/λ)max (Å−1) | 0.595 |
| Refinement | |
|
| 0.042, 0.101, 1.05 |
| No. of reflections | 1732 |
| No. of parameters | 137 |
| H-atom treatment | H-atom parameters constrained |
| Δρmax, Δρmin (e Å−3) | 0.25, −0.26 |
Computer programs: APEX2 and SAINT (Bruker, 2014 ▸), SHELXS97 and SHELXTL (Sheldrick, 2008 ▸), SHELXL2014 (Sheldrick, 2015 ▸), DIAMOND (Brandenburg, 2010 ▸) and publCIF (Westrip, 2010 ▸).
| C22H22N2O4S2 | |
| Monoclinic, | Mo |
| Cell parameters from 1676 reflections | |
| θ = 3.1–26.1° | |
| µ = 0.30 mm−1 | |
| β = 94.333 (2)° | |
| Rod, yellow | |
| 0.23 × 0.05 × 0.04 mm |
| Bruker APEXII CCD diffractometer | 1360 reflections with |
| φ and ω scans | |
| Absorption correction: multi-scan (SADABS; Bruker, 2014) | θmax = 25.0°, θmin = 1.6° |
| 5641 measured reflections | |
| 1732 independent reflections |
| Refinement on | 0 restraints |
| Least-squares matrix: full | Hydrogen site location: inferred from neighbouring sites |
| H-atom parameters constrained | |
| (Δ/σ)max < 0.001 | |
| 1732 reflections | Δρmax = 0.25 e Å−3 |
| 137 parameters | Δρmin = −0.26 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. |
| S1 | 0.25895 (9) | 0.32924 (13) | 0.17605 (3) | 0.0356 (2) | |
| O1 | 0.5336 (2) | 0.2804 (3) | 0.04996 (7) | 0.0310 (4) | |
| O2 | 0.8407 (2) | 0.9669 (3) | 0.12693 (6) | 0.0326 (5) | |
| N1 | 0.6852 (2) | 0.6297 (4) | 0.08708 (8) | 0.0243 (5) | |
| C1 | 0.0764 (4) | 0.4611 (6) | 0.20299 (12) | 0.0458 (8) | |
| H1A | 0.0888 | 0.4506 | 0.2423 | 0.069* | |
| H1B | −0.0207 | 0.3548 | 0.1895 | 0.069* | |
| H1C | 0.0609 | 0.6503 | 0.1919 | 0.069* | |
| C2 | 0.4130 (3) | 0.5621 (5) | 0.20506 (10) | 0.0273 (6) | |
| H2A | 0.3685 | 0.7488 | 0.2024 | 0.033* | |
| H2B | 0.4374 | 0.5191 | 0.2436 | 0.033* | |
| C3 | 0.5728 (3) | 0.5448 (5) | 0.17623 (9) | 0.0276 (6) | |
| H3A | 0.6650 | 0.6315 | 0.1985 | 0.033* | |
| H3B | 0.6023 | 0.3526 | 0.1710 | 0.033* | |
| C4 | 0.5500 (3) | 0.6857 (5) | 0.12200 (10) | 0.0274 (6) | |
| H4A | 0.4431 | 0.6269 | 0.1035 | 0.033* | |
| H4B | 0.5434 | 0.8834 | 0.1279 | 0.033* | |
| C5 | 0.6592 (3) | 0.4151 (4) | 0.05056 (9) | 0.0243 (6) | |
| C6 | 0.7912 (3) | 0.3668 (4) | 0.01356 (9) | 0.0214 (5) | |
| C7 | 0.9374 (3) | 0.5241 (4) | 0.01778 (8) | 0.0200 (5) | |
| C8 | 0.9613 (3) | 0.7304 (4) | 0.05690 (9) | 0.0228 (5) | |
| C9 | 0.8287 (3) | 0.7878 (4) | 0.09317 (9) | 0.0249 (6) | |
| C10 | 0.7698 (3) | 0.1661 (4) | −0.02484 (9) | 0.0234 (5) | |
| H10 | 0.6712 | 0.0598 | −0.0273 | 0.028* | |
| C11 | 1.1054 (3) | 0.8802 (4) | 0.06017 (9) | 0.0242 (6) | |
| H11 | 1.1210 | 1.0173 | 0.0868 | 0.029* |
| S1 | 0.0366 (5) | 0.0304 (4) | 0.0400 (4) | −0.0049 (3) | 0.0038 (3) | −0.0064 (3) |
| O1 | 0.0268 (11) | 0.0293 (9) | 0.0371 (10) | −0.0088 (8) | 0.0036 (8) | −0.0010 (8) |
| O2 | 0.0372 (11) | 0.0284 (9) | 0.0322 (10) | −0.0041 (8) | 0.0025 (8) | −0.0113 (8) |
| N1 | 0.0252 (12) | 0.0200 (10) | 0.0273 (11) | −0.0021 (9) | 0.0009 (9) | −0.0004 (8) |
| C1 | 0.0360 (19) | 0.0483 (17) | 0.0541 (19) | −0.0024 (14) | 0.0104 (14) | 0.0018 (15) |
| C2 | 0.0320 (16) | 0.0220 (12) | 0.0276 (13) | −0.0002 (11) | −0.0003 (11) | −0.0003 (10) |
| C3 | 0.0292 (15) | 0.0272 (13) | 0.0260 (13) | 0.0017 (11) | −0.0011 (11) | −0.0019 (10) |
| C4 | 0.0254 (15) | 0.0255 (13) | 0.0314 (14) | 0.0034 (11) | 0.0038 (11) | 0.0005 (11) |
| C5 | 0.0275 (15) | 0.0199 (12) | 0.0247 (13) | −0.0006 (11) | −0.0034 (10) | 0.0039 (10) |
| C6 | 0.0237 (14) | 0.0150 (11) | 0.0248 (13) | 0.0001 (10) | −0.0031 (10) | 0.0028 (9) |
| C7 | 0.0226 (14) | 0.0152 (11) | 0.0214 (12) | −0.0006 (10) | −0.0037 (9) | 0.0028 (9) |
| C8 | 0.0253 (14) | 0.0178 (11) | 0.0246 (13) | −0.0015 (10) | −0.0026 (10) | 0.0028 (9) |
| C9 | 0.0284 (15) | 0.0211 (12) | 0.0246 (13) | 0.0008 (10) | −0.0021 (10) | 0.0034 (10) |
| C10 | 0.0220 (14) | 0.0198 (12) | 0.0273 (13) | −0.0028 (10) | −0.0065 (10) | 0.0044 (10) |
| C11 | 0.0302 (15) | 0.0177 (11) | 0.0236 (13) | −0.0019 (10) | −0.0045 (10) | −0.0018 (9) |
| S1—C1 | 1.785 (3) | C3—H3B | 0.9900 |
| S1—C2 | 1.803 (2) | C4—H4A | 0.9900 |
| O1—C5 | 1.210 (3) | C4—H4B | 0.9900 |
| O2—C9 | 1.221 (3) | C5—C6 | 1.479 (3) |
| N1—C9 | 1.394 (3) | C6—C10 | 1.381 (3) |
| N1—C5 | 1.404 (3) | C6—C7 | 1.408 (3) |
| N1—C4 | 1.471 (3) | C7—C7i | 1.413 (4) |
| C1—H1A | 0.9800 | C7—C8 | 1.415 (3) |
| C1—H1B | 0.9800 | C8—C11 | 1.373 (3) |
| C1—H1C | 0.9800 | C8—C9 | 1.478 (3) |
| C2—C3 | 1.523 (3) | C10—C11i | 1.404 (3) |
| C2—H2A | 0.9900 | C10—H10 | 0.9500 |
| C2—H2B | 0.9900 | C11—C10i | 1.404 (3) |
| C3—C4 | 1.521 (3) | C11—H11 | 0.9500 |
| C3—H3A | 0.9900 | ||
| C1—S1—C2 | 100.17 (12) | N1—C4—H4B | 108.9 |
| C9—N1—C5 | 125.2 (2) | C3—C4—H4B | 108.9 |
| C9—N1—C4 | 118.31 (19) | H4A—C4—H4B | 107.7 |
| C5—N1—C4 | 116.52 (19) | O1—C5—N1 | 120.4 (2) |
| S1—C1—H1A | 109.5 | O1—C5—C6 | 122.9 (2) |
| S1—C1—H1B | 109.5 | N1—C5—C6 | 116.7 (2) |
| H1A—C1—H1B | 109.5 | C10—C6—C7 | 120.5 (2) |
| S1—C1—H1C | 109.5 | C10—C6—C5 | 119.5 (2) |
| H1A—C1—H1C | 109.5 | C7—C6—C5 | 120.0 (2) |
| H1B—C1—H1C | 109.5 | C6—C7—C7i | 119.5 (2) |
| C3—C2—S1 | 110.75 (16) | C6—C7—C8 | 121.3 (2) |
| C3—C2—H2A | 109.5 | C7i—C7—C8 | 119.3 (3) |
| S1—C2—H2A | 109.5 | C11—C8—C7 | 120.0 (2) |
| C3—C2—H2B | 109.5 | C11—C8—C9 | 120.4 (2) |
| S1—C2—H2B | 109.5 | C7—C8—C9 | 119.6 (2) |
| H2A—C2—H2B | 108.1 | O2—C9—N1 | 120.2 (2) |
| C4—C3—C2 | 110.2 (2) | O2—C9—C8 | 122.6 (2) |
| C4—C3—H3A | 109.6 | N1—C9—C8 | 117.2 (2) |
| C2—C3—H3A | 109.6 | C6—C10—C11i | 119.7 (2) |
| C4—C3—H3B | 109.6 | C6—C10—H10 | 120.1 |
| C2—C3—H3B | 109.6 | C11i—C10—H10 | 120.1 |
| H3A—C3—H3B | 108.1 | C8—C11—C10i | 121.1 (2) |
| N1—C4—C3 | 113.37 (19) | C8—C11—H11 | 119.5 |
| N1—C4—H4A | 108.9 | C10i—C11—H11 | 119.5 |
| C3—C4—H4A | 108.9 | ||
| C1—S1—C2—C3 | −163.99 (17) | C6—C7—C8—C11 | 179.8 (2) |
| S1—C2—C3—C4 | 75.4 (2) | C7i—C7—C8—C11 | −0.3 (4) |
| C9—N1—C4—C3 | −84.9 (2) | C6—C7—C8—C9 | −1.7 (3) |
| C5—N1—C4—C3 | 94.0 (2) | C7i—C7—C8—C9 | 178.1 (2) |
| C2—C3—C4—N1 | −167.95 (19) | C5—N1—C9—O2 | −178.5 (2) |
| C9—N1—C5—O1 | 176.4 (2) | C4—N1—C9—O2 | 0.3 (3) |
| C4—N1—C5—O1 | −2.5 (3) | C5—N1—C9—C8 | 2.2 (3) |
| C9—N1—C5—C6 | −4.1 (3) | C4—N1—C9—C8 | −178.94 (19) |
| C4—N1—C5—C6 | 177.07 (18) | C11—C8—C9—O2 | 0.0 (3) |
| O1—C5—C6—C10 | 2.3 (3) | C7—C8—C9—O2 | −178.4 (2) |
| N1—C5—C6—C10 | −177.28 (19) | C11—C8—C9—N1 | 179.24 (19) |
| O1—C5—C6—C7 | −177.5 (2) | C7—C8—C9—N1 | 0.8 (3) |
| N1—C5—C6—C7 | 3.0 (3) | C7—C6—C10—C11i | −0.4 (3) |
| C10—C6—C7—C7i | 0.2 (4) | C5—C6—C10—C11i | 179.8 (2) |
| C5—C6—C7—C7i | 179.9 (2) | C7—C8—C11—C10i | 0.5 (3) |
| C10—C6—C7—C8 | −179.9 (2) | C9—C8—C11—C10i | −177.9 (2) |
| C5—C6—C7—C8 | −0.2 (3) |
| H··· | ||||
| C4—H4 | 0.99 | 2.84 | 3.300 (2) | 109 |
| C4—H4 | 0.99 | 2.32 | 2.688 (3) | 101 |
| C10—H10···O1ii | 0.95 | 2.39 | 3.316 (3) | 164 |
| C11—H11···S1iii | 0.95 | 2.86 | 3.779 (2) | 162 |