| Literature DB >> 26870412 |
Ghazala Naz1, Muhammad Nawaz Tahir2, Saeed Ahmad1, Anvarhusein A Isab3, Mohammed Fettouhi3.
Abstract
In the structure of the title compound, [CdCl2(C4H8N2S)2], the Cd(II) atom is coordinated by two chloride ions and two 1,3-diazinane-2-thione (Diaz) mol-ecules through their S atoms. The geometry around the Cd(II) atom is distorted tetra-hedral, with bond angles in the range 101.55 (7)-117.91 (8)°. The CH2 groups of one Diaz ligand are disordered over two sets of sites with an occupancy ratio of 0.711 (12):0.289 (12). The mol-ecular structure is stabilized by intra-molecular N-H⋯Cl hydrogen-bonding inter-actions, generating a butterfly syn conformation. Inter-molecular N-H⋯Cl and N-H⋯S inter-actions lead to the formation of a three-dimensional network structure. The structure has been determined from a crystal twinned by nonmerohedry, by a 180° rotation around the reciprocal c axis. The twin ratio refined to 0.8866 (6):0.1134 (6).Entities:
Keywords: 1,3-diazinane-2-thione; cadmium chloride; crystal structure
Year: 2015 PMID: 26870412 PMCID: PMC4719821 DOI: 10.1107/S205698901502109X
Source DB: PubMed Journal: Acta Crystallogr E Crystallogr Commun
Figure 1A view of the molecular structure of the title compound, showing the atom-numbering scheme. The displacement ellipsoids are drawn at the 50% probability level. The minor-occupancy C atoms are connected by dashed lines.
Hydrogen-bond geometry (Å, °)
|
|
| H⋯ |
|
|
|---|---|---|---|---|
| N1—H1⋯Cl2 | 0.86 | 2.46 | 3.230 (3) | 149 |
| N2—H2⋯S2i | 0.86 | 2.55 | 3.363 (2) | 159 |
| N3 | 0.86 | 2.46 | 3.196 (3) | 144 |
| N3 | 0.86 | 2.48 | 3.196 (3) | 141 |
| N4 | 0.86 | 2.44 | 3.270 (3) | 162 |
| N4 | 0.86 | 2.46 | 3.270 (3) | 157 |
Symmetry codes: (i) ; (ii) .
Figure 2The packing diagram for (I), showing the hydrogen-bonding interactions. The minor-occupancy disordered atoms have been omitted for clarity.
Experimental details
| Crystal data | |
| Chemical formula | [CdCl2(C4H8N2S)2] |
|
| 415.67 |
| Crystal system, space group | Monoclinic, |
| Temperature (K) | 296 |
|
| 8.5078 (8), 14.7201 (13), 12.0019 (10) |
| β (°) | 101.016 (4) |
|
| 1475.4 (2) |
|
| 4 |
| Radiation type | Mo |
| μ (mm−1) | 2.11 |
| Crystal size (mm) | 0.40 × 0.30 × 0.28 |
| Data collection | |
| Diffractometer | Bruker APEXII CCD |
| Absorption correction | Multi-scan ( |
|
| 0.487, 0.589 |
| No. of measured, independent and observed [ | 3512, 3512, 3110 |
|
| 0.037 |
| (sin θ/λ)max (Å−1) | 0.657 |
| Refinement | |
|
| 0.029, 0.077, 1.05 |
| No. of reflections | 3512 |
| No. of parameters | 184 |
| No. of restraints | 50 |
| H-atom treatment | H-atom parameters constrained |
| Δρmax, Δρmin (e Å−3) | 0.56, −1.18 |
Computer programs: APEX2 and SAINT (Bruker, 2007 ▸) and CELL NOW (Sheldrick, 2005 ▸), SHELXS97 (Sheldrick, 2008 ▸), SHELXL2014 (Sheldrick, 2015 ▸) and ORTEP-3 for Windows (Farrugia, 2012 ▸).
| [CdCl2(C4H8N2S)2] | |
| Monoclinic, | Mo |
| Cell parameters from 3110 reflections | |
| θ = 2.2–27.9° | |
| µ = 2.11 mm−1 | |
| β = 101.016 (4)° | |
| Block, light yellow | |
| 0.40 × 0.30 × 0.28 mm |
| Bruker APEXII CCD diffractometer | 3512 independent reflections |
| Radiation source: fine-focus sealed tube | 3110 reflections with |
| Graphite monochromator | |
| Detector resolution: 7.6 pixels mm-1 | θmax = 27.9°, θmin = 2.2° |
| φ and ω scans | |
| Absorption correction: multi-scan (TWINABS; Sheldrick, 2009) | |
| 3512 measured reflections |
| Refinement on | Secondary atom site location: difference Fourier map |
| Least-squares matrix: full | Hydrogen site location: inferred from neighbouring sites |
| H-atom parameters constrained | |
| (Δ/σ)max = 0.001 | |
| 3512 reflections | Δρmax = 0.56 e Å−3 |
| 184 parameters | Δρmin = −1.18 e Å−3 |
| 50 restraints | Extinction correction: |
| Primary atom site location: structure-invariant direct methods | Extinction coefficient: 0.0020 (4) |
| Geometry. All e.s.d.'s (except the e.s.d. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell e.s.d.'s are taken into account individually in the estimation of e.s.d.'s in distances, angles and torsion angles; correlations between e.s.d.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell e.s.d.'s is used for estimating e.s.d.'s involving l.s. planes. |
| Refinement. Refinement of |
| Occ. (<1) | |||||
| Cd1 | 0.24350 (2) | 0.25053 (2) | −0.17323 (2) | 0.03632 (9) | |
| Cl1 | 0.00058 (10) | 0.33253 (7) | −0.25626 (7) | 0.0599 (2) | |
| Cl2 | 0.24104 (10) | 0.26375 (5) | 0.03652 (7) | 0.04534 (18) | |
| S1 | 0.26254 (11) | 0.08460 (5) | −0.22331 (6) | 0.04513 (19) | |
| S2 | 0.50720 (10) | 0.32086 (6) | −0.20300 (6) | 0.0462 (2) | |
| N1 | 0.2258 (3) | 0.04740 (16) | −0.0092 (2) | 0.0449 (6) | |
| H1 | 0.1902 | 0.1020 | −0.0077 | 0.054* | |
| N2 | 0.3317 (3) | −0.06371 (16) | −0.1046 (2) | 0.0388 (5) | |
| H2 | 0.3724 | −0.0789 | −0.1622 | 0.047* | |
| C1 | 0.2737 (3) | 0.01920 (18) | −0.1023 (2) | 0.0330 (5) | |
| C2 | 0.2306 (5) | −0.0096 (2) | 0.0905 (2) | 0.0524 (8) | |
| H2A | 0.1458 | 0.0081 | 0.1298 | 0.063* | |
| H2B | 0.3322 | −0.0017 | 0.1422 | 0.063* | |
| C3 | 0.2098 (4) | −0.1080 (2) | 0.0549 (3) | 0.0486 (8) | |
| H3A | 0.2239 | −0.1466 | 0.1215 | 0.058* | |
| H3B | 0.1028 | −0.1176 | 0.0113 | 0.058* | |
| C4 | 0.3314 (4) | −0.1317 (2) | −0.0156 (3) | 0.0458 (7) | |
| H4A | 0.4368 | −0.1347 | 0.0324 | 0.055* | |
| H4B | 0.3070 | −0.1909 | −0.0500 | 0.055* | |
| C5 | 0.6195 (3) | 0.35738 (18) | −0.0751 (2) | 0.0355 (6) | |
| N3A | 0.5543 (3) | 0.37659 (18) | 0.0138 (2) | 0.0446 (6) | 0.715 (11) |
| H3C | 0.4526 | 0.3700 | 0.0077 | 0.053* | 0.715 (11) |
| C6A | 0.6473 (10) | 0.4084 (17) | 0.1216 (8) | 0.058 (4) | 0.715 (11) |
| H6A | 0.6716 | 0.3575 | 0.1733 | 0.069* | 0.715 (11) |
| H6B | 0.5846 | 0.4519 | 0.1553 | 0.069* | 0.715 (11) |
| C7A | 0.7995 (6) | 0.4519 (5) | 0.1047 (5) | 0.0599 (18) | 0.715 (11) |
| H7A | 0.8663 | 0.4651 | 0.1778 | 0.072* | 0.715 (11) |
| H7B | 0.7759 | 0.5086 | 0.0639 | 0.072* | 0.715 (11) |
| C8A | 0.8876 (8) | 0.3891 (5) | 0.0382 (5) | 0.0501 (17) | 0.715 (11) |
| H8A | 0.9821 | 0.4188 | 0.0214 | 0.060* | 0.715 (11) |
| H8B | 0.9206 | 0.3344 | 0.0815 | 0.060* | 0.715 (11) |
| N4A | 0.7753 (3) | 0.3665 (2) | −0.0678 (2) | 0.0503 (7) | 0.715 (11) |
| H4C | 0.8138 | 0.3587 | −0.1284 | 0.060* | 0.715 (11) |
| N3B | 0.5543 (3) | 0.37659 (18) | 0.0138 (2) | 0.0446 (6) | 0.285 (11) |
| H3D | 0.4519 | 0.3718 | 0.0043 | 0.053* | 0.285 (11) |
| C6B | 0.637 (2) | 0.405 (4) | 0.126 (2) | 0.054 (9) | 0.285 (11) |
| H6C | 0.5985 | 0.3701 | 0.1837 | 0.065* | 0.285 (11) |
| H6D | 0.6163 | 0.4686 | 0.1374 | 0.065* | 0.285 (11) |
| C7B | 0.8121 (14) | 0.3903 (11) | 0.1362 (9) | 0.051 (4) | 0.285 (11) |
| H7C | 0.8369 | 0.3264 | 0.1489 | 0.062* | 0.285 (11) |
| H7D | 0.8698 | 0.4242 | 0.2005 | 0.062* | 0.285 (11) |
| C8B | 0.864 (2) | 0.4215 (12) | 0.0283 (11) | 0.055 (5) | 0.285 (11) |
| H8C | 0.8404 | 0.4855 | 0.0154 | 0.066* | 0.285 (11) |
| H8D | 0.9787 | 0.4129 | 0.0348 | 0.066* | 0.285 (11) |
| N4B | 0.7753 (3) | 0.3665 (2) | −0.0678 (2) | 0.0503 (7) | 0.285 (11) |
| H4D | 0.8239 | 0.3416 | −0.1166 | 0.060* | 0.285 (11) |
| Cd1 | 0.03251 (13) | 0.03676 (13) | 0.03966 (13) | 0.00136 (8) | 0.00685 (9) | 0.00459 (8) |
| Cl1 | 0.0476 (4) | 0.0886 (6) | 0.0445 (4) | 0.0300 (4) | 0.0115 (3) | 0.0120 (4) |
| Cl2 | 0.0537 (5) | 0.0469 (4) | 0.0391 (3) | −0.0049 (3) | 0.0180 (3) | −0.0017 (3) |
| S1 | 0.0669 (5) | 0.0369 (4) | 0.0326 (3) | −0.0009 (3) | 0.0120 (3) | 0.0021 (3) |
| S2 | 0.0460 (4) | 0.0624 (5) | 0.0318 (3) | −0.0169 (4) | 0.0118 (3) | 0.0020 (3) |
| N1 | 0.0633 (17) | 0.0344 (12) | 0.0418 (12) | 0.0098 (12) | 0.0219 (12) | 0.0036 (10) |
| N2 | 0.0451 (14) | 0.0345 (12) | 0.0377 (11) | 0.0040 (10) | 0.0103 (10) | −0.0032 (10) |
| C1 | 0.0331 (14) | 0.0331 (13) | 0.0325 (11) | −0.0029 (11) | 0.0055 (10) | −0.0001 (10) |
| C2 | 0.076 (2) | 0.0485 (18) | 0.0372 (14) | 0.0022 (16) | 0.0223 (15) | 0.0047 (13) |
| C3 | 0.059 (2) | 0.0433 (17) | 0.0426 (15) | −0.0060 (15) | 0.0084 (14) | 0.0090 (13) |
| C4 | 0.0532 (19) | 0.0357 (15) | 0.0456 (15) | 0.0055 (14) | 0.0024 (14) | 0.0042 (12) |
| C5 | 0.0371 (15) | 0.0351 (14) | 0.0354 (12) | −0.0034 (11) | 0.0093 (11) | 0.0050 (10) |
| N3A | 0.0331 (13) | 0.0609 (16) | 0.0413 (12) | −0.0057 (11) | 0.0113 (10) | −0.0080 (11) |
| C6A | 0.055 (4) | 0.078 (9) | 0.042 (3) | −0.014 (4) | 0.011 (3) | −0.015 (4) |
| C7A | 0.049 (3) | 0.066 (4) | 0.064 (3) | −0.009 (3) | 0.010 (2) | −0.021 (3) |
| C8A | 0.032 (3) | 0.057 (4) | 0.059 (3) | 0.000 (3) | 0.004 (2) | −0.006 (3) |
| N4A | 0.0349 (14) | 0.0725 (19) | 0.0463 (13) | −0.0056 (12) | 0.0151 (11) | −0.0070 (12) |
| N3B | 0.0331 (13) | 0.0609 (16) | 0.0413 (12) | −0.0057 (11) | 0.0113 (10) | −0.0080 (11) |
| C6B | 0.042 (7) | 0.07 (2) | 0.046 (8) | −0.008 (7) | 0.008 (5) | −0.015 (9) |
| C7B | 0.044 (6) | 0.058 (9) | 0.050 (5) | −0.005 (5) | 0.005 (4) | −0.015 (5) |
| C8B | 0.036 (7) | 0.067 (10) | 0.060 (6) | −0.007 (7) | 0.004 (5) | −0.008 (6) |
| N4B | 0.0349 (14) | 0.0725 (19) | 0.0463 (13) | −0.0056 (12) | 0.0151 (11) | −0.0070 (12) |
| Cd1—Cl1 | 2.4361 (8) | N3A—C6A | 1.458 (7) |
| Cd1—S1 | 2.5280 (8) | N3A—H3C | 0.8600 |
| Cd1—Cl2 | 2.5290 (8) | C6A—C7A | 1.493 (12) |
| Cd1—S2 | 2.5571 (8) | C6A—H6A | 0.9700 |
| S1—C1 | 1.730 (3) | C6A—H6B | 0.9700 |
| S2—C5 | 1.731 (3) | C7A—C8A | 1.510 (8) |
| N1—C1 | 1.327 (3) | C7A—H7A | 0.9700 |
| N1—C2 | 1.456 (4) | C7A—H7B | 0.9700 |
| N1—H1 | 0.8600 | C8A—N4A | 1.476 (6) |
| N2—C1 | 1.319 (3) | C8A—H8A | 0.9700 |
| N2—C4 | 1.464 (4) | C8A—H8B | 0.9700 |
| N2—H2 | 0.8600 | N4A—H4C | 0.8600 |
| C2—C3 | 1.511 (5) | N3B—C6B | 1.456 (15) |
| C2—H2A | 0.9700 | N3B—H3D | 0.8600 |
| C2—H2B | 0.9700 | C6B—C7B | 1.484 (19) |
| C3—C4 | 1.497 (4) | C6B—H6C | 0.9700 |
| C3—H3A | 0.9700 | C6B—H6D | 0.9700 |
| C3—H3B | 0.9700 | C7B—C8B | 1.518 (15) |
| C4—H4A | 0.9700 | C7B—H7C | 0.9700 |
| C4—H4B | 0.9700 | C7B—H7D | 0.9700 |
| C5—N4B | 1.318 (4) | C8B—N4B | 1.492 (13) |
| C5—N4A | 1.318 (4) | C8B—H8C | 0.9700 |
| C5—N3B | 1.324 (3) | C8B—H8D | 0.9700 |
| C5—N3A | 1.324 (3) | N4B—H4D | 0.8600 |
| Cl1—Cd1—S1 | 118.00 (3) | N3A—C6A—H6A | 109.5 |
| Cl1—Cd1—Cl2 | 101.61 (3) | C7A—C6A—H6A | 109.5 |
| S1—Cd1—Cl2 | 108.91 (2) | N3A—C6A—H6B | 109.5 |
| Cl1—Cd1—S2 | 116.15 (3) | C7A—C6A—H6B | 109.5 |
| S1—Cd1—S2 | 105.08 (3) | H6A—C6A—H6B | 108.1 |
| Cl2—Cd1—S2 | 106.39 (3) | C6A—C7A—C8A | 109.9 (8) |
| C1—S1—Cd1 | 109.50 (9) | C6A—C7A—H7A | 109.7 |
| C5—S2—Cd1 | 110.63 (9) | C8A—C7A—H7A | 109.7 |
| C1—N1—C2 | 123.1 (2) | C6A—C7A—H7B | 109.7 |
| C1—N1—H1 | 118.4 | C8A—C7A—H7B | 109.7 |
| C2—N1—H1 | 118.4 | H7A—C7A—H7B | 108.2 |
| C1—N2—C4 | 124.4 (2) | N4A—C8A—C7A | 106.8 (5) |
| C1—N2—H2 | 117.8 | N4A—C8A—H8A | 110.4 |
| C4—N2—H2 | 117.8 | C7A—C8A—H8A | 110.4 |
| N2—C1—N1 | 118.9 (2) | N4A—C8A—H8B | 110.4 |
| N2—C1—S1 | 117.3 (2) | C7A—C8A—H8B | 110.4 |
| N1—C1—S1 | 123.8 (2) | H8A—C8A—H8B | 108.6 |
| N1—C2—C3 | 109.7 (2) | C5—N4A—C8A | 123.9 (3) |
| N1—C2—H2A | 109.7 | C5—N4A—H4C | 118.1 |
| C3—C2—H2A | 109.7 | C8A—N4A—H4C | 118.1 |
| N1—C2—H2B | 109.7 | C5—N3B—C6B | 127.0 (7) |
| C3—C2—H2B | 109.7 | C5—N3B—H3D | 116.5 |
| H2A—C2—H2B | 108.2 | C6B—N3B—H3D | 116.5 |
| C4—C3—C2 | 109.1 (3) | N3B—C6B—C7B | 109.7 (14) |
| C4—C3—H3A | 109.9 | N3B—C6B—H6C | 109.7 |
| C2—C3—H3A | 109.9 | C7B—C6B—H6C | 109.7 |
| C4—C3—H3B | 109.9 | N3B—C6B—H6D | 109.7 |
| C2—C3—H3B | 109.9 | C7B—C6B—H6D | 109.7 |
| H3A—C3—H3B | 108.3 | H6C—C6B—H6D | 108.2 |
| N2—C4—C3 | 110.5 (2) | C6B—C7B—C8B | 109.7 (18) |
| N2—C4—H4A | 109.5 | C6B—C7B—H7C | 109.7 |
| C3—C4—H4A | 109.5 | C8B—C7B—H7C | 109.7 |
| N2—C4—H4B | 109.5 | C6B—C7B—H7D | 109.7 |
| C3—C4—H4B | 109.5 | C8B—C7B—H7D | 109.7 |
| H4A—C4—H4B | 108.1 | H7C—C7B—H7D | 108.2 |
| N4B—C5—N3B | 119.7 (3) | N4B—C8B—C7B | 107.9 (11) |
| N4A—C5—N3A | 119.7 (3) | N4B—C8B—H8C | 110.1 |
| N4B—C5—S2 | 117.9 (2) | C7B—C8B—H8C | 110.1 |
| N4A—C5—S2 | 117.9 (2) | N4B—C8B—H8D | 110.1 |
| N3B—C5—S2 | 122.4 (2) | C7B—C8B—H8D | 110.1 |
| N3A—C5—S2 | 122.4 (2) | H8C—C8B—H8D | 108.4 |
| C5—N3A—C6A | 122.9 (4) | C5—N4B—C8B | 117.5 (7) |
| C5—N3A—H3C | 118.5 | C5—N4B—H4D | 121.3 |
| C6A—N3A—H3C | 118.5 | C8B—N4B—H4D | 121.3 |
| N3A—C6A—C7A | 110.8 (7) | ||
| C4—N2—C1—N1 | 7.1 (4) | S2—C5—N3A—C6A | −179.3 (12) |
| C4—N2—C1—S1 | −172.2 (2) | C5—N3A—C6A—C7A | 24 (2) |
| C2—N1—C1—N2 | −1.5 (4) | N3A—C6A—C7A—C8A | −51.6 (17) |
| C2—N1—C1—S1 | 177.7 (3) | C6A—C7A—C8A—N4A | 55.3 (10) |
| Cd1—S1—C1—N2 | −160.02 (19) | N3A—C5—N4A—C8A | 5.9 (6) |
| Cd1—S1—C1—N1 | 20.8 (3) | S2—C5—N4A—C8A | −174.4 (4) |
| C1—N1—C2—C3 | −29.8 (4) | C7A—C8A—N4A—C5 | −34.2 (8) |
| N1—C2—C3—C4 | 53.7 (4) | N4B—C5—N3B—C6B | −2 (3) |
| C1—N2—C4—C3 | 19.8 (4) | S2—C5—N3B—C6B | 178 (3) |
| C2—C3—C4—N2 | −49.1 (3) | C5—N3B—C6B—C7B | −12 (5) |
| Cd1—S2—C5—N4B | 157.6 (2) | N3B—C6B—C7B—C8B | 43 (4) |
| Cd1—S2—C5—N4A | 157.6 (2) | C6B—C7B—C8B—N4B | −61 (3) |
| Cd1—S2—C5—N3B | −22.8 (3) | N3B—C5—N4B—C8B | −16.5 (9) |
| Cd1—S2—C5—N3A | −22.8 (3) | S2—C5—N4B—C8B | 163.2 (8) |
| N4A—C5—N3A—C6A | 0.4 (12) | C7B—C8B—N4B—C5 | 47.6 (16) |
| H··· | ||||
| N1—H1···Cl2 | 0.86 | 2.46 | 3.230 (3) | 149 |
| N2—H2···S2i | 0.86 | 2.55 | 3.363 (2) | 159 |
| N3 | 0.86 | 2.46 | 3.196 (3) | 144 |
| N3 | 0.86 | 2.48 | 3.196 (3) | 141 |
| N4 | 0.86 | 2.44 | 3.270 (3) | 162 |
| N4 | 0.86 | 2.46 | 3.270 (3) | 157 |
| C7 | 0.97 | 2.85 | 3.769 (16) | 159 |