organic compounds
E)-2-[1-(1,3-benzodioxol-5-yl)ethylidene]-N-ethylhydrazine-1-carbothioamide
of (aDepartamento de Química, Universidade Federal de Sergipe, Av. Marechal Rondon s/n, Campus, 49100-000 São Cristóvão-SE, Brazil, and bInstitut für Anorganische Chemie, Christian-Albrechts-Universität zu Kiel, Max-Eyth Strasse 2, D-24118 Kiel, Germany
*Correspondence e-mail: adriano@daad-alumni.de
In the title compound, C12H15N3O2S, the 1,3-benzdioxole fragment is nearly planar [the maximum deviation being 0.0515 (14) Å], the N—N—C(=S)—N fragment is also nearly planar [the maximum deviation being 0.0480 (10) Å], and the dihedral angle between their mean planes is 23.49 (10)°. In the crystal, molecules are linked by pairs of N—H⋯S hydrogen bonds, forming inversion dimers. The dimers are stacked along the a axis with neighbouring columns having the same direction; however, the molecules show different orientations leading to a centrosymmetric arrangement. In the crystal, the methylene group of the ethyl substituent and the terminal methyl H atoms are disordered over two sets of sites and were refined using a split model with an occupancy ratio of 0.5:0.5.
CCDC reference: 1051034
1. Related literature
For one of the first reports of the synthesis of thiosemicarbazone derivatives, see: Freund & Schander (1902). For one of the first reports of 3′,4′-(methylenedioxy)acetophenone extraction from the South American Aniba rosaeodora tree, see: Mors et al. (1957). For the crystal structures of two derivatives of the title compound, see: Oliveira et al. (2013, 2015).
2. Experimental
2.1. Crystal data
|
2.2. Data collection
|
2.3. Refinement
|
Data collection: X-AREA (Stoe & Cie, 2008); cell X-AREA; data reduction: X-RED32 (Stoe & Cie, 2008); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL2013-2 (Sheldrick, 2015); molecular graphics: DIAMOND (Brandenburg, 2006); software used to prepare material for publication: publCIF (Westrip, 2010).
Supporting information
CCDC reference: 1051034
10.1107/S2056989015003837/xu5837sup1.cif
contains datablocks I, publication_text. DOI:Structure factors: contains datablock I. DOI: 10.1107/S2056989015003837/xu5837Isup2.hkl
Supporting information file. DOI: 10.1107/S2056989015003837/xu5837Isup3.cml
Concerning our interest and on going research on thiosemicarbazone derivatives from natural products, we report herein the synthesis and
of 1-(2H-1,3-benzodioxol-5-yl)ethanone 4-ethylthiosemicarbazide. The carbonylated precursor is a secondary metabolite from Amazonian Magnoliid trees that belong to the Lauraceae family, the Aniba rosaeodora, (Mors et al., 1957).The molecular structure of the title compound, which matches the
is not planar [the mean deviation from planarity for non-H atoms, and excluding the disordered C11/C11' entity, amounts to 0.3794 (17) Å for C5]. The maximum deviation from the mean plane of the non-H atoms of the 1,3-benzodioxole fragment amounts to 0.0515 (14) Å for C7 and for the N1/N2/C10/S1/N3 fragment amounts 0.0480 (10) Å for N2, with the dihedral angle between the planes being 23.49 (10)°.In the crystal, the molecules are connected by pairs of N2—H1N2···S1 intermolecular hydrogen bonds building dimers. The dimers are stacked along a-axis and although the neighbour columns have the same direction, the dimeric units show different orientations leading to a centrosymmetric structure (Figure 2 and Table 1).
Starting materials are commercially available and were used without further purification. The synthesis of the title compound was adapted from a previously procedure (Freund & Schander, 1902). In a hydrochloric acid catalized reaction, a mixture of 3',4'-(methylenedioxy)acetophenone (10 mmol) and 4-ethyl-3-thiosemicarbazide (10 mmol) in ethanol (80 mL) was refluxed for 4 h. After cooling and filtering, the title compound was obtained. Colourless crystal grown in DMSO by the slow evaporation of the solvent.
The C—H H atoms were positioned with idealized geometry (methyl H atoms were allowed to rotate but not to tip) and refined isotropic with Uiso(H) = 1.2Ueq(C) (1.5 for methyl H atoms) using a riding model with C—H = 0.94 Å for aromatic, C—H = 0.98 Å for methylene and C—H = 0.97 Å for methyl H atoms. The N—H H atoms were located in a difference map and were refined isotropic with varying coordinates in the beginning. Finally, the N—H distances were set to ideal values of 0.87 Å and they were refined isotropic with Uiso(H) = 1.2Ueq(N) using a riding model. The methylene C atom C11 is disordered in two orientations and were refined using a split model with occupancy of 0.5:0.5.
Data collection: X-AREA (Stoe & Cie, 2008); cell
X-AREA (Stoe & Cie, 2008); data reduction: X-RED32 (Stoe & Cie, 2008); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL2013-2 (Sheldrick, 2015); molecular graphics: DIAMOND (Brandenburg, 2006); software used to prepare material for publication: publCIF (Westrip, 2010).C12H15N3O2S | Z = 2 |
Mr = 265.33 | F(000) = 280 |
Triclinic, P1 | Dx = 1.371 Mg m−3 |
a = 5.7207 (3) Å | Mo Kα radiation, λ = 0.71073 Å |
b = 10.6225 (6) Å | Cell parameters from 9389 reflections |
c = 10.8103 (6) Å | θ = 1.9–27.0° |
α = 83.908 (5)° | µ = 0.25 mm−1 |
β = 79.913 (5)° | T = 250 K |
γ = 87.029 (5)° | Parallelepiped, colourless |
V = 642.74 (6) Å3 | 0.15 × 0.15 × 0.10 mm |
Stoe IPDS-1 diffractometer | 2288 reflections with I > 2σ(I) |
Radiation source: fine-focus sealed tube, Stoe IPDS-1 | Rint = 0.042 |
Graphite monochromator | θmax = 27.0°, θmin = 1.9° |
ϕ scans | h = −7→7 |
9389 measured reflections | k = −13→13 |
2811 independent reflections | l = −13→13 |
Refinement on F2 | Primary atom site location: structure-invariant direct methods |
Least-squares matrix: full | Secondary atom site location: difference Fourier map |
R[F2 > 2σ(F2)] = 0.039 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.116 | H-atom parameters constrained |
S = 1.03 | w = 1/[σ2(Fo2) + (0.0649P)2 + 0.1118P] where P = (Fo2 + 2Fc2)/3 |
2811 reflections | (Δ/σ)max < 0.001 |
173 parameters | Δρmax = 0.28 e Å−3 |
0 restraints | Δρmin = −0.23 e Å−3 |
C12H15N3O2S | γ = 87.029 (5)° |
Mr = 265.33 | V = 642.74 (6) Å3 |
Triclinic, P1 | Z = 2 |
a = 5.7207 (3) Å | Mo Kα radiation |
b = 10.6225 (6) Å | µ = 0.25 mm−1 |
c = 10.8103 (6) Å | T = 250 K |
α = 83.908 (5)° | 0.15 × 0.15 × 0.10 mm |
β = 79.913 (5)° |
Stoe IPDS-1 diffractometer | 2288 reflections with I > 2σ(I) |
9389 measured reflections | Rint = 0.042 |
2811 independent reflections |
R[F2 > 2σ(F2)] = 0.039 | 0 restraints |
wR(F2) = 0.116 | H-atom parameters constrained |
S = 1.03 | Δρmax = 0.28 e Å−3 |
2811 reflections | Δρmin = −0.23 e Å−3 |
173 parameters |
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 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 > σ(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. |
x | y | z | Uiso*/Ueq | Occ. (<1) | |
C1 | 0.7435 (3) | 0.18956 (14) | 0.16339 (15) | 0.0407 (3) | |
C2 | 0.8619 (3) | 0.24715 (14) | 0.24537 (15) | 0.0428 (3) | |
H2 | 0.8352 | 0.3334 | 0.2575 | 0.051* | |
C3 | 1.0167 (3) | 0.17309 (16) | 0.30646 (16) | 0.0457 (4) | |
C4 | 1.0618 (3) | 0.04644 (16) | 0.28893 (17) | 0.0516 (4) | |
C5 | 0.9543 (4) | −0.01187 (16) | 0.20857 (19) | 0.0581 (5) | |
H5 | 0.9863 | −0.0977 | 0.1962 | 0.070* | |
C6 | 0.7937 (3) | 0.06224 (16) | 0.14522 (17) | 0.0515 (4) | |
H6 | 0.7174 | 0.0250 | 0.0887 | 0.062* | |
O1 | 1.1441 (2) | 0.20752 (13) | 0.39317 (13) | 0.0621 (4) | |
C7 | 1.2882 (3) | 0.0980 (2) | 0.4229 (2) | 0.0615 (5) | |
H7A | 1.4562 | 0.1148 | 0.3917 | 0.074* | |
H7B | 1.2668 | 0.0771 | 0.5146 | 0.074* | |
O2 | 1.2191 (3) | −0.00457 (13) | 0.36476 (15) | 0.0698 (4) | |
C8 | 0.5558 (3) | 0.26302 (14) | 0.10543 (15) | 0.0407 (3) | |
C9 | 0.4637 (3) | 0.21798 (17) | −0.00254 (18) | 0.0541 (4) | |
H9A | 0.3116 | 0.1794 | 0.0280 | 0.081* | |
H9B | 0.5755 | 0.1560 | −0.0415 | 0.081* | |
H9C | 0.4440 | 0.2892 | −0.0643 | 0.081* | |
N1 | 0.4771 (2) | 0.36261 (12) | 0.15902 (13) | 0.0420 (3) | |
N2 | 0.2949 (2) | 0.43540 (12) | 0.11811 (13) | 0.0432 (3) | |
H1N2 | 0.2234 | 0.4229 | 0.0560 | 0.052* | |
C10 | 0.2019 (3) | 0.53176 (15) | 0.18658 (16) | 0.0461 (4) | |
S1 | −0.03625 (8) | 0.61725 (4) | 0.15015 (5) | 0.05451 (17) | |
N3 | 0.3122 (3) | 0.55269 (18) | 0.27906 (18) | 0.0732 (5) | |
H1N3 | 0.4362 | 0.5027 | 0.2843 | 0.088* | |
C11 | 0.2171 (16) | 0.6290 (8) | 0.3858 (8) | 0.071 (2) | 0.5 |
H11A | 0.1138 | 0.6987 | 0.3576 | 0.085* | 0.5 |
H11B | 0.1232 | 0.5758 | 0.4544 | 0.085* | 0.5 |
C11' | 0.2731 (18) | 0.6716 (7) | 0.3447 (8) | 0.0675 (19) | 0.5 |
H11C | 0.2989 | 0.7447 | 0.2812 | 0.081* | 0.5 |
H11D | 0.1073 | 0.6766 | 0.3872 | 0.081* | 0.5 |
C12 | 0.4155 (6) | 0.6790 (3) | 0.4304 (3) | 0.1149 (12) | |
H12A | 0.5616 | 0.6353 | 0.3959 | 0.172* | 0.5 |
H12B | 0.3914 | 0.6663 | 0.5219 | 0.172* | 0.5 |
H12C | 0.4259 | 0.7689 | 0.4032 | 0.172* | 0.5 |
H12D | 0.4978 | 0.5980 | 0.4444 | 0.172* | 0.5 |
H12E | 0.3205 | 0.7007 | 0.5092 | 0.172* | 0.5 |
H12F | 0.5307 | 0.7438 | 0.3993 | 0.172* | 0.5 |
U11 | U22 | U33 | U12 | U13 | U23 | |
C1 | 0.0423 (7) | 0.0354 (7) | 0.0438 (8) | 0.0004 (6) | −0.0029 (6) | −0.0089 (6) |
C2 | 0.0447 (8) | 0.0345 (7) | 0.0491 (8) | −0.0006 (6) | −0.0058 (6) | −0.0077 (6) |
C3 | 0.0450 (8) | 0.0449 (8) | 0.0467 (8) | −0.0031 (6) | −0.0063 (6) | −0.0043 (6) |
C4 | 0.0492 (9) | 0.0433 (9) | 0.0588 (10) | 0.0060 (7) | −0.0064 (7) | 0.0028 (7) |
C5 | 0.0666 (11) | 0.0355 (8) | 0.0716 (12) | 0.0095 (7) | −0.0103 (9) | −0.0106 (8) |
C6 | 0.0577 (10) | 0.0395 (8) | 0.0594 (10) | 0.0034 (7) | −0.0105 (8) | −0.0161 (7) |
O1 | 0.0644 (8) | 0.0599 (8) | 0.0684 (8) | 0.0018 (6) | −0.0293 (7) | −0.0074 (6) |
C7 | 0.0524 (10) | 0.0694 (12) | 0.0607 (11) | 0.0010 (9) | −0.0142 (8) | 0.0083 (9) |
O2 | 0.0699 (9) | 0.0565 (8) | 0.0853 (10) | 0.0114 (6) | −0.0292 (7) | 0.0024 (7) |
C8 | 0.0417 (7) | 0.0357 (7) | 0.0449 (8) | −0.0012 (6) | −0.0050 (6) | −0.0095 (6) |
C9 | 0.0538 (9) | 0.0522 (10) | 0.0617 (10) | 0.0070 (7) | −0.0156 (8) | −0.0245 (8) |
N1 | 0.0417 (6) | 0.0370 (6) | 0.0485 (7) | 0.0033 (5) | −0.0086 (5) | −0.0108 (5) |
N2 | 0.0430 (7) | 0.0398 (7) | 0.0501 (7) | 0.0048 (5) | −0.0128 (5) | −0.0150 (5) |
C10 | 0.0464 (8) | 0.0403 (8) | 0.0539 (9) | 0.0033 (6) | −0.0106 (7) | −0.0150 (7) |
S1 | 0.0481 (2) | 0.0521 (3) | 0.0700 (3) | 0.01332 (18) | −0.02210 (19) | −0.0241 (2) |
N3 | 0.0788 (11) | 0.0749 (11) | 0.0815 (11) | 0.0404 (9) | −0.0444 (9) | −0.0480 (9) |
C11 | 0.070 (4) | 0.073 (5) | 0.081 (6) | 0.027 (4) | −0.029 (4) | −0.046 (4) |
C11' | 0.087 (5) | 0.057 (4) | 0.068 (5) | 0.027 (3) | −0.032 (4) | −0.033 (3) |
C12 | 0.109 (2) | 0.133 (3) | 0.122 (2) | 0.029 (2) | −0.0365 (19) | −0.089 (2) |
C1—C6 | 1.395 (2) | N1—N2 | 1.3730 (18) |
C1—C2 | 1.410 (2) | N2—C10 | 1.358 (2) |
C1—C8 | 1.483 (2) | N2—H1N2 | 0.8699 |
C2—C3 | 1.364 (2) | C10—N3 | 1.315 (2) |
C2—H2 | 0.9400 | C10—S1 | 1.6792 (17) |
C3—O1 | 1.372 (2) | N3—C11 | 1.489 (9) |
C3—C4 | 1.383 (2) | N3—C11' | 1.501 (9) |
C4—C5 | 1.363 (3) | N3—H1N3 | 0.8700 |
C4—O2 | 1.375 (2) | C11—C12 | 1.453 (10) |
C5—C6 | 1.401 (3) | C11—H11A | 0.9800 |
C5—H5 | 0.9400 | C11—H11B | 0.9800 |
C6—H6 | 0.9400 | C11'—C12 | 1.347 (10) |
O1—C7 | 1.432 (2) | C11'—H11C | 0.9800 |
C7—O2 | 1.420 (3) | C11'—H11D | 0.9800 |
C7—H7A | 0.9800 | C12—H12A | 0.9700 |
C7—H7B | 0.9800 | C12—H12B | 0.9700 |
C8—N1 | 1.2832 (19) | C12—H12C | 0.9700 |
C8—C9 | 1.493 (2) | C12—H12D | 0.9700 |
C9—H9A | 0.9700 | C12—H12E | 0.9700 |
C9—H9B | 0.9700 | C12—H12F | 0.9700 |
C9—H9C | 0.9700 | ||
C6—C1—C2 | 119.34 (15) | C10—N2—N1 | 117.50 (13) |
C6—C1—C8 | 121.30 (15) | C10—N2—H1N2 | 115.4 |
C2—C1—C8 | 119.22 (13) | N1—N2—H1N2 | 126.9 |
C3—C2—C1 | 117.54 (14) | N3—C10—N2 | 115.66 (15) |
C3—C2—H2 | 121.2 | N3—C10—S1 | 123.92 (12) |
C1—C2—H2 | 121.2 | N2—C10—S1 | 120.41 (13) |
C2—C3—O1 | 127.54 (15) | C10—N3—C11 | 126.2 (4) |
C2—C3—C4 | 122.40 (16) | C10—N3—C11' | 123.1 (4) |
O1—C3—C4 | 110.05 (15) | C10—N3—H1N3 | 113.3 |
C5—C4—O2 | 128.69 (16) | C11—N3—H1N3 | 119.0 |
C5—C4—C3 | 121.73 (16) | C11'—N3—H1N3 | 121.5 |
O2—C4—C3 | 109.57 (17) | C12—C11—N3 | 108.7 (6) |
C4—C5—C6 | 116.86 (15) | C12—C11—H11A | 110.0 |
C4—C5—H5 | 121.6 | N3—C11—H11A | 110.0 |
C6—C5—H5 | 121.6 | C12—C11—H11B | 110.0 |
C1—C6—C5 | 122.10 (17) | N3—C11—H11B | 110.0 |
C1—C6—H6 | 118.9 | H11A—C11—H11B | 108.3 |
C5—C6—H6 | 118.9 | C12—C11'—N3 | 114.0 (6) |
C3—O1—C7 | 105.38 (14) | C12—C11'—H11C | 108.7 |
O2—C7—O1 | 108.49 (15) | N3—C11'—H11C | 108.7 |
O2—C7—H7A | 110.0 | C12—C11'—H11D | 108.7 |
O1—C7—H7A | 110.0 | N3—C11'—H11D | 108.7 |
O2—C7—H7B | 110.0 | H11C—C11'—H11D | 107.6 |
O1—C7—H7B | 110.0 | C11—C12—H12A | 109.5 |
H7A—C7—H7B | 108.4 | C11—C12—H12B | 109.5 |
C4—O2—C7 | 105.90 (14) | H12A—C12—H12B | 109.5 |
N1—C8—C1 | 114.42 (14) | C11—C12—H12C | 109.5 |
N1—C8—C9 | 124.48 (15) | H12A—C12—H12C | 109.5 |
C1—C8—C9 | 121.04 (13) | H12B—C12—H12C | 109.5 |
C8—C9—H9A | 109.5 | C11'—C12—H12D | 109.5 |
C8—C9—H9B | 109.5 | C11'—C12—H12E | 109.5 |
H9A—C9—H9B | 109.5 | H12D—C12—H12E | 109.5 |
C8—C9—H9C | 109.5 | C11'—C12—H12F | 109.5 |
H9A—C9—H9C | 109.5 | H12D—C12—H12F | 109.5 |
H9B—C9—H9C | 109.5 | H12E—C12—H12F | 109.5 |
C8—N1—N2 | 120.07 (14) | ||
C6—C1—C2—C3 | −1.9 (2) | C6—C1—C8—N1 | 159.25 (15) |
C8—C1—C2—C3 | 173.75 (14) | C2—C1—C8—N1 | −16.3 (2) |
C1—C2—C3—O1 | −177.54 (15) | C6—C1—C8—C9 | −18.1 (2) |
C1—C2—C3—C4 | 1.0 (2) | C2—C1—C8—C9 | 166.30 (15) |
C2—C3—C4—C5 | 0.3 (3) | C1—C8—N1—N2 | −176.84 (12) |
O1—C3—C4—C5 | 179.06 (16) | C9—C8—N1—N2 | 0.4 (2) |
C2—C3—C4—O2 | −178.38 (15) | C8—N1—N2—C10 | 173.15 (14) |
O1—C3—C4—O2 | 0.34 (19) | N1—N2—C10—N3 | 6.2 (2) |
O2—C4—C5—C6 | 177.85 (17) | N1—N2—C10—S1 | −174.75 (11) |
C3—C4—C5—C6 | −0.6 (3) | N2—C10—N3—C11 | −164.2 (4) |
C2—C1—C6—C5 | 1.7 (3) | S1—C10—N3—C11 | 16.8 (5) |
C8—C1—C6—C5 | −173.86 (16) | N2—C10—N3—C11' | 165.3 (4) |
C4—C5—C6—C1 | −0.4 (3) | S1—C10—N3—C11' | −13.8 (5) |
C2—C3—O1—C7 | −176.90 (16) | C10—N3—C11—C12 | −153.3 (4) |
C4—C3—O1—C7 | 4.46 (18) | C11'—N3—C11—C12 | −61.3 (15) |
C3—O1—C7—O2 | −7.55 (19) | C10—N3—C11'—C12 | −175.3 (4) |
C5—C4—O2—C7 | 176.35 (19) | C11—N3—C11'—C12 | 79.0 (15) |
C3—C4—O2—C7 | −5.04 (19) | N3—C11'—C12—C11 | −73.0 (13) |
O1—C7—O2—C4 | 7.8 (2) | N3—C11—C12—C11' | 68.3 (14) |
D—H···A | D—H | H···A | D···A | D—H···A |
N2—H1N2···S1i | 0.87 | 2.72 | 3.5842 (14) | 175 |
Symmetry code: (i) −x, −y+1, −z. |
D—H···A | D—H | H···A | D···A | D—H···A |
N2—H1N2···S1i | 0.87 | 2.72 | 3.5842 (14) | 175.2 |
Symmetry code: (i) −x, −y+1, −z. |
Acknowledgements
We gratefully acknowledge financial support by the State of Schleswig–Holstein, Germany, and Professor Dr Wolfgang Bensch for access to his experimental facilities. We acknowledge also the financial support by FAPITEC/SE/FUNTEC/CNPq through the PPP Program 04/2011.
References
Brandenburg, K. (2006). DIAMOND. Crystal Impact GbR, Bonn, Germany. Google Scholar
Freund, M. & Schander, A. (1902). Ber. Dtsch Chem. Ges. 35, 2602–2606. CrossRef CAS Google Scholar
Mors, W. B., Gottlieb, O. R. & Djerassi, C. (1957). J. Am. Chem. Soc. 79, 4507–4511. CrossRef CAS Web of Science Google Scholar
Oliveira, A. B. de, Farias, R. L. de, Näther, C., Jess, I. & Bresolin, L. (2013). Acta Cryst. E69, o644. CSD CrossRef IUCr Journals Google Scholar
Oliveira, A. B. de, Näther, C., Jess, I., Farias, R. L. de & Ribeiro, I. A. (2015). Acta Cryst. E71, o35–o36. CrossRef IUCr Journals Google Scholar
Sheldrick, G. M. (2008). Acta Cryst. A64, 112–122. Web of Science CrossRef CAS IUCr Journals Google Scholar
Sheldrick, G. M. (2015). Acta Cryst. C71, 3–8. Web of Science CrossRef IUCr Journals Google Scholar
Stoe & Cie (2008). X-AREA, X-RED32 and X-SHAPE. Stoe & Cie, Darmstadt, Germany. Google Scholar
Westrip, S. P. (2010). J. Appl. Cryst. 43, 920–925. Web of Science CrossRef CAS IUCr Journals Google Scholar
This is an open-access article distributed under the terms of the Creative Commons Attribution (CC-BY) Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original authors and source are cited.