organic compounds
N-Methyl-2-{3-methyl-2-[(2Z)-pent-2-en-1-yl]cyclopent-2-en-1-ylidene}hydrazinecarbothioamide
aDepartamento de Química, Universidade Federal de Sergipe, Av. Marcelo Deda Chagas s/n, Campus Universitário, 49107-230 São Cristóvão-SE, Brazil, bEscola de Química e Alimentos, Universidade Federal do Rio Grande, Av. Itália km 08, Campus Carreiros, 96203-900 Rio Grande-RS, Brazil, and cInstitut für Anorganische Chemie, Rheinische Friedrich-Wilhelms-Universität Bonn, Gerhard-Domagk-Strasse 1, D-53121 Bonn, Germany
*Correspondence e-mail: adriano@daad-alumni.de
The equimolar and hydrochloric acid-catalysed reaction between cis-jasmone and 4-methylthiosemicarbazide in ethanolic solution yields the title compound, C13H21N3S (common name: cis-jasmone 4-methylthiosemicarbazone). Two molecules with all atoms in general positions are present in the In one of them, the carbon chain is disordered [site occupancy ratio = 0.821 (3):0.179 (3)]. The thiosemicarbazone entities [N—N—C(=S)—N] are approximately planar, with the maximum deviation from the mean plane through the selected atoms being −0.0115 (16) Å (r.m.s.d. = 0.0078 Å) for the non-disordered molecule and 0.0052 (14) Å (r.m.s.d. = 0.0031 Å) for the disordered one. The molecules are not planar, since the jasmone groups have a chain with sp3-hybridized carbon atoms and, in addition, the thiosemicarbazone fragments are attached to the respective carbon five-membered rings and the dihedral angles between them for each molecule amount to 8.9 (1) and 6.3 (1)°. In the crystal, the molecules are connected through pairs of N—H⋯S and C—H⋯S interactions into crystallographically independent centrosymmetric dimers, in which rings of graph-set motifs R22(8) and R21(7) are observed. A Hirshfeld surface analysis indicates that the major contributions for the crystal cohesion are from H⋯H (70.6%), H⋯S/S⋯H (16.7%), H⋯C/C⋯H (7.5%) and H⋯N/N⋯H (4.9%) interactions [considering the two crystallographically independent molecules and only the disordered atoms with the highest s.o.f. for the evaluation].
Keywords: thiosemicarbazone; cis-jasmone; methylthiosemicarbazone derivative; centrosymmetric dimers; crystal structure; Hirshfeld analysis.
CCDC reference: 2304272
Structure description
To the best of our knowledge, the first cis-jasmone thiosemicarbazone was reported recently and it was pointed out that this derivative based on non-substituted cis-jasmone shows antifungal activity (Orsoni et al., 2020; Jamiołkowska et al., 2022).
ofAs part of our interest in thiosemicarbazones attached to natural product derivatives and on the influence of the substituent groups at the terminal N atom on the supramolecular arrangement, we report here the synthesis, cis-jasmone 4-methylthiosemicarbazone. It is important to highlight that the substituents at the terminal N atom are relevant not only to the crystal packing, but also to the biological properties of the thiosemicarbazone derivatives. For example, a small chemical library of 4-methylthiosemicarbazones has been studied for the treatment of Parkinson's disease (Mathew et al., 2021) and for microbial growth inhibition (D'Agostino et al., 2022). In addition, for a review article on coordination compounds with 4-methylthiosemicarbazone derivatives including biological applications and see: Monsur Showkot Hossain et al. (2023).
and Hirshfeld analysis ofThe sp3-hybridized carbon atoms in the jasmone fragment and the dihedral angles between the thiosemicarbazone fragment and the respective carbon five-membered ring, which amount to 8.9 (1)° for the non-disordered molecule and 6.3 (1)° for the disordered one (Fig. 1). To simplify the structure description, the non-disordered molecule, with atoms C1–C13/N–N3/S1, will be designated as JMTSC-1, while the disordered one, with the atoms C14–C23A/C23B/N4–N6/S2, will be designated as JMTSC-2. To get a stable the C20, C21, C22 and C23 atoms were split into two positions and A-labelled for the higher s.o.f and B-labelled for the lower. Atom C19, which is itself not disordered, is bound to C20A and C20B, and to achieve the best orientations for the C19—H bonds, the H19A and H19B atoms were also split, into two positions. Thus, the H19A and H19B atoms have a s.o.f. of 0.821 (3) and the H19C and H19D atoms have a s.o.f. of 0.179 (3). Selected geometric parameters for the structural description of JMTSC-1 and JMTSC-2 are given in Table 1; these are in agreement with literature data (Oliveira et al., 2016; Rocha et al., 2014).
of the title compound comprises two molecules with all atoms in general positions, with one of them showing disorder over the carbon chain [site occupancy ratio = 0.821 (3):0.179 (3)]. The molecules are not planar due to the chain withFor the supramolecular arrangement and Hirshfeld analysis, for clarity only the disordered atoms with the highest s.o.f. value were considered. In the crystal, the molecules are connected through pairs of N—H⋯S and C—H⋯S interactions into centrosymmetric dimers with graph-set motifs R22(8) and R21(7) (Table 2).
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With the coordinates that were used for the JMTSC-1 molecules have the gravity centre located in the cell vertices (Fig. 2), and in the centre of the ac planes for the JMTSC-2 molecules (Fig. 3). In addition, the molecules are stacked along [100] and only weak intermolecular interactions, e.g., London dispersion forces can be presumed in this direction (Fig. 4).
the crystallographically independent dimers of theThe Hirshfeld surface analysis (Hirshfeld, 1977), the graphical representations and the two-dimensional Hirshfeld surface fingerprints (HSFP) were evaluated with the Crystal Explorer software (Wolff et al., 2012). The Hirshfeld surface analysis of the title compound, considering the JMTSC-1 and the JMTSC-2 molecules, suggests that the most relevant intermolecular interactions for the crystal packing are H⋯H (70.6%), H⋯S/S⋯H (16.7%), H⋯C/C⋯H (7.5%) and H⋯N/N⋯H (4.9%). A graphical representation of the Hirshfeld surface (dnorm) is shown in Fig. 5 with the locations of the strongest intermolecular contacts, i.e, the regions around the atoms H1, H3, S1 and S2, indicated in red. These atoms are those involved in the H⋯S interactions showed in the previous figures (Figs. 2 and 3). The contributions to the crystal cohesion are shown as two-dimensional Hirshfeld surface fingerprint plots (HSFP) with cyan dots (Fig. 6).
The crystalline supramolecular arrangement of thiosemicarbazones depends on the template effect of the crystallization solvent, the presence of solvate molecules and on the crystallization methods. In addition, the R1R2N—N(H)—C(=S)—NR3R4 fragment is of prime importance for the crystal packing. In the title compound, two structural features lead to the building of dimers. The first one is the terminal methyl group, N(H)CH3, which decreases the possibility for N—H⋯S intermolecular interactions and enhances the formation of hydrogen-bonded supramolecular structures. On the other side of the molecule, the second feature is the cis-jasmone entity, which, through precludes intermolecular interactions, e.g., N—H⋯S or N—H⋯N (Figs. 2 and 3); thus, four methyl-substituted thiosemicarbazone derivatives were selected for structural comparison with the title compound.
of the substituents in theThe first example is the et al., 2014). As a result of the of two methyl groups, one on the terminal N atom and other on the C atom attached to the thiosemicarbazone entity, dimer formation was favoured. The remaining N—H bond is involved in the N—H⋯N intramolecular interaction, with graph-set motif S(5). Thus, the molecules are linked by N—H⋯S interactions, with graph-set motif R22(8), into centrosymmetric dimers. For the graphical representation of the dimeric unit, see Fig. 7(a).
of benzylideneacetone 4-methylthiosemicarbazone (RochaThe second selected molecule is the vanilline 4-methylthiosemicarbazone derivative (Oliveira, Beck et al., 2015) in which the thiosemicarbazone entities are connected by N—H⋯S interactions, with graph-set motif R22(8), into centrosymmetric dimers. The dimers are further linked through N—H⋯S and O—H⋯S interactions and can be considered subunits of a hydrogen-bonded tape-like supramolecular arrangement. This is only possible because of the O atoms in the vanilline structure, see Fig. 7(b).
A further example is 3′,4′-(methylenedioxy)acetophenone 4-methylthiosemicarbazone (Oliveira, Näther et al., 2015). As mentioned above, the terminal methyl group decreases the dimensionality of the molecular arrangement and the thiosemicarbazone entities are connected by pairs of centrosymmetric N—H⋯S interactions, with graph-set motifs R22(8). A feature of the structural arrangement of this compound is that every thiosemicarbazone fragment bridges two other molecules through N—H⋯S interactions in opposite directions, see Fig. 8(a).
Finally, the structure of (–)-menthone 4-methylthiosemicarbazone (Oliveira et al., 2016) shows a non-centrosymmetric dimer, with the molecules connected by pairs of N—H⋯S interactions, also with graph-set motif R22(8). A difference in this structure is the linking of the terminal N—H bonds between the molecules through N—H⋯S interactions into a tape-like structure. For the dimeric subunit of the supramolecular arrangement, see Fig. 8(b).
As observed for the title compound, pairs of N—H⋯S intermolecular interactions with graph-set motif R22(8) are a remarkable feature for the of thiosemicarbazone derivatives. The supramolecular arrangement of the compounds depends on the structure of the substituents on the terminal N atom, as well as on the fragment attached to the first N atom.
Synthesis and crystallization
The starting materials are commercially available and were used without further purification. The synthesis of the cis-jasmone 4-methylthiosemicarbazone derivative was adapted from previously reported procedures (Oliveira, Beck et al., 2015; Orsoni et al., 2020). A mixture of ethanolic solutions of cis-jasmone (8 mmol in 50 ml) and 4-methylthiosemicarbazide (8 mmol in 50 ml) was catalysed with HCl and refluxed for 8 h. After cooling, the precipitated product was filtered off and washed with cold ethanol. Colourless single crystals suitable for X-ray diffraction were obtained from tetrahydrofuran by slow evaporation of the solvent at room temperature.
Refinement
Crystal data, data collection and structure . There are two crystallographically independent molecules in the of the title compound and one of them, JMTSC-2, shows disorder over the chain of the cis-jasmone fragment, namely the C20, C21, C22, C23, H19C and H19D atoms (Fig. 1). These atoms were split over two positions, with the carbon atoms being A-labelled for the higher s.o.f. value positions and B-labelled for the lower [site-occupancy ratio = 0.821 (3):0.179 (3)]. The atom C19 is itself not disordered, but it is bound to C20A and C20B, and to get the best orientations for the C19—H bonds, the hydrogen atoms were disordered. Thus, H19A and H19B have the positions with higher s.o.f., while H19C and H19D have the positions with the lower. The EADP command was used to constrain the displacement parameters of the disordered carbon atoms.
details are summarized in Table 3
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The H atoms were treated by a mixture of constrained and independent 3, C23AH3, C23BH3 and C26H3 groups, the methyl H atoms were allowed to rotate but not to tip to best fit the experimental electron density, with Uiso(H) = 1.5 Ueq(C), and the C—H bonds were set to 0.96 Å. In an analogous manner, with Uiso(H) = 1.2 Ueq(C), for the C22AH2 and C22BH2 groups the C—H bond lengths were set to 0.97 Å and for the C20AH, C20BH, C21AH and C21BH, were set to 0.93 Å. In addition, the C19—H bonds were set to 0.97 Å. The remaining H atoms were refined freely.
The constrained H atoms were located in a difference-Fourier map, but were positioned with idealized geometry and refined using a riding model. For the C13HStructural data
CCDC reference: 2304272
https://doi.org/10.1107/S2414314624000130/bt4146sup1.cif
contains datablocks I, publication_text. DOI:Structure factors: contains datablock I. DOI: https://doi.org/10.1107/S2414314624000130/bt4146Isup2.hkl
Supporting information file. DOI: https://doi.org/10.1107/S2414314624000130/bt4146Isup3.cml
C13H21N3S | Z = 4 |
Mr = 251.39 | F(000) = 544 |
Triclinic, P1 | Dx = 1.205 Mg m−3 |
a = 7.9583 (2) Å | Mo Kα radiation, λ = 0.71073 Å |
b = 11.2703 (2) Å | Cell parameters from 22795 reflections |
c = 16.0080 (5) Å | θ = 2.9–27.5° |
α = 83.0428 (18)° | µ = 0.22 mm−1 |
β = 86.9392 (13)° | T = 223 K |
γ = 76.5236 (18)° | Prism, colourless |
V = 1385.51 (6) Å3 | 0.28 × 0.13 × 0.12 mm |
Enraf–Nonius FR590 Kappa CCD diffractometer | 6319 independent reflections |
Radiation source: sealed X-ray tube, Enraf Nonius FR590 | 3700 reflections with I > 2σ(I) |
Horizontally mounted graphite crystal monochromator | Rint = 0.056 |
Detector resolution: 9 pixels mm-1 | θmax = 27.5°, θmin = 3.0° |
CCD rotation images, thick slices, κ–goniostat scans | h = −10→10 |
Absorption correction: analytical (Alcock, 1970) | k = −14→14 |
Tmin = 0.945, Tmax = 0.978 | l = −20→20 |
23118 measured reflections |
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)] = 0.052 | Hydrogen site location: mixed |
wR(F2) = 0.140 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.03 | w = 1/[σ2(Fo2) + (0.0556P)2 + 0.4261P] where P = (Fo2 + 2Fc2)/3 |
6319 reflections | (Δ/σ)max = 0.001 |
432 parameters | Δρmax = 0.29 e Å−3 |
0 restraints | Δρmin = −0.24 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. |
x | y | z | Uiso*/Ueq | Occ. (<1) | |
C1 | 0.0353 (3) | 0.1677 (2) | 0.75329 (13) | 0.0349 (5) | |
C2 | 0.0002 (4) | 0.0424 (2) | 0.75249 (14) | 0.0389 (5) | |
C3 | 0.0007 (4) | 0.0248 (2) | 0.65901 (15) | 0.0417 (6) | |
C4 | 0.0398 (3) | 0.1401 (2) | 0.61351 (13) | 0.0376 (5) | |
C5 | 0.0551 (3) | 0.2205 (2) | 0.66637 (13) | 0.0364 (5) | |
C6 | 0.0898 (4) | 0.3467 (2) | 0.64395 (17) | 0.0442 (6) | |
C7 | −0.0620 (4) | 0.4410 (2) | 0.60830 (17) | 0.0486 (6) | |
H7 | −0.090 (3) | 0.427 (3) | 0.5551 (18) | 0.067 (9)* | |
C8 | −0.1493 (4) | 0.5392 (3) | 0.6422 (2) | 0.0583 (7) | |
H8 | −0.243 (3) | 0.593 (2) | 0.6108 (16) | 0.055 (7)* | |
C9 | −0.1227 (6) | 0.5789 (3) | 0.7249 (2) | 0.0773 (10) | |
H9A | −0.009 (5) | 0.516 (4) | 0.750 (2) | 0.124 (14)* | |
H9B | −0.226 (5) | 0.571 (3) | 0.762 (2) | 0.110 (13)* | |
C10 | −0.1051 (5) | 0.7098 (3) | 0.7187 (2) | 0.0664 (9) | |
H10A | −0.003 (5) | 0.725 (3) | 0.684 (2) | 0.090 (11)* | |
H10B | −0.095 (5) | 0.735 (3) | 0.771 (2) | 0.103 (13)* | |
H10C | −0.203 (5) | 0.764 (3) | 0.692 (2) | 0.102 (12)* | |
C11 | 0.0650 (3) | 0.2114 (2) | 0.96479 (14) | 0.0410 (6) | |
C12 | 0.0594 (4) | 0.1544 (3) | 0.52013 (16) | 0.0502 (7) | |
C13 | 0.1722 (4) | 0.3754 (3) | 1.01676 (17) | 0.0605 (8) | |
H13A | 0.078825 | 0.394161 | 1.057058 | 0.091* | |
H13B | 0.202888 | 0.449897 | 0.992591 | 0.091* | |
H13C | 0.270256 | 0.321649 | 1.044276 | 0.091* | |
H1 | 0.000 (3) | 0.099 (3) | 0.9014 (16) | 0.055 (9)* | |
H2 | 0.136 (4) | 0.342 (3) | 0.9011 (18) | 0.062 (9)* | |
H4A | −0.107 (3) | 0.012 (2) | 0.6423 (14) | 0.043 (7)* | |
H4B | 0.087 (3) | −0.043 (2) | 0.6446 (14) | 0.041 (6)* | |
H5A | −0.111 (4) | 0.036 (2) | 0.7836 (16) | 0.062 (8)* | |
H5B | 0.083 (3) | −0.023 (2) | 0.7831 (16) | 0.055 (7)* | |
H6A | 0.132 (3) | 0.375 (2) | 0.6918 (14) | 0.037 (6)* | |
H6B | 0.178 (4) | 0.344 (2) | 0.6043 (17) | 0.058 (8)* | |
H11A | −0.050 (4) | 0.144 (3) | 0.4942 (19) | 0.078 (10)* | |
H11B | 0.151 (4) | 0.097 (3) | 0.5017 (18) | 0.070 (9)* | |
H11C | 0.082 (4) | 0.233 (3) | 0.4981 (18) | 0.078 (10)* | |
N1 | 0.0527 (2) | 0.22380 (17) | 0.81644 (11) | 0.0402 (5) | |
N2 | 0.0324 (3) | 0.1628 (2) | 0.89595 (12) | 0.0443 (5) | |
N3 | 0.1185 (3) | 0.3154 (2) | 0.95063 (14) | 0.0503 (6) | |
S1 | 0.03760 (10) | 0.14256 (6) | 1.06201 (4) | 0.0555 (2) | |
C14 | 0.5379 (3) | 0.16267 (19) | 0.71740 (13) | 0.0329 (5) | |
C15 | 0.5078 (4) | 0.0367 (2) | 0.74221 (14) | 0.0370 (5) | |
C16 | 0.5116 (4) | 0.0211 (2) | 0.83872 (14) | 0.0412 (6) | |
C17 | 0.5457 (3) | 0.1391 (2) | 0.86107 (13) | 0.0375 (5) | |
C18 | 0.5580 (3) | 0.21881 (19) | 0.79294 (13) | 0.0347 (5) | |
C19 | 0.5811 (3) | 0.3483 (2) | 0.78856 (15) | 0.0448 (6) | |
H19A | 0.643811 | 0.356753 | 0.837003 | 0.054* | 0.821 (3) |
H19B | 0.647894 | 0.366698 | 0.738193 | 0.054* | 0.821 (3) |
H19C | 0.685443 | 0.350346 | 0.754772 | 0.054* | 0.179 (3) |
H19D | 0.486229 | 0.399219 | 0.755824 | 0.054* | 0.179 (3) |
C20A | 0.4087 (5) | 0.4364 (3) | 0.7871 (2) | 0.0532 (8) | 0.821 (3) |
H20A | 0.329480 | 0.415962 | 0.754005 | 0.064* | 0.821 (3) |
C21A | 0.3451 (5) | 0.5388 (3) | 0.8238 (2) | 0.0569 (9) | 0.821 (3) |
H21A | 0.229448 | 0.576497 | 0.815022 | 0.068* | 0.821 (3) |
C22A | 0.4385 (6) | 0.5964 (3) | 0.8758 (2) | 0.0621 (10) | 0.821 (3) |
H22A | 0.557592 | 0.550356 | 0.879680 | 0.075* | 0.821 (3) |
H22B | 0.387225 | 0.595899 | 0.932190 | 0.075* | 0.821 (3) |
C23A | 0.4333 (6) | 0.7287 (3) | 0.8386 (3) | 0.0612 (11) | 0.821 (3) |
H23A | 0.474681 | 0.729616 | 0.781112 | 0.092* | 0.821 (3) |
H23B | 0.505314 | 0.763050 | 0.870457 | 0.092* | 0.821 (3) |
H23C | 0.316591 | 0.776477 | 0.840756 | 0.092* | 0.821 (3) |
C20B | 0.592 (2) | 0.4084 (12) | 0.8561 (9) | 0.0532 (8) | 0.179 (3) |
H20B | 0.682753 | 0.377545 | 0.892534 | 0.064* | 0.179 (3) |
C21B | 0.479 (2) | 0.5069 (15) | 0.8714 (11) | 0.0569 (9) | 0.179 (3) |
H21B | 0.516842 | 0.521502 | 0.922436 | 0.068* | 0.179 (3) |
C22B | 0.319 (3) | 0.6156 (17) | 0.8557 (11) | 0.0621 (10) | 0.179 (3) |
H22C | 0.239982 | 0.592198 | 0.820463 | 0.075* | 0.179 (3) |
H22D | 0.260444 | 0.632136 | 0.909131 | 0.075* | 0.179 (3) |
C23B | 0.366 (3) | 0.728 (2) | 0.8152 (14) | 0.0612 (11) | 0.179 (3) |
H23D | 0.363076 | 0.783573 | 0.856476 | 0.092* | 0.179 (3) |
H23E | 0.284292 | 0.766305 | 0.772294 | 0.092* | 0.179 (3) |
H23F | 0.479632 | 0.707879 | 0.790243 | 0.092* | 0.179 (3) |
C24 | 0.5633 (5) | 0.1554 (3) | 0.95104 (15) | 0.0526 (7) | |
C25 | 0.5613 (3) | 0.2125 (2) | 0.49665 (13) | 0.0354 (5) | |
C26 | 0.6433 (4) | 0.3925 (2) | 0.41676 (15) | 0.0529 (7) | |
H26A | 0.739134 | 0.344372 | 0.387775 | 0.079* | |
H26B | 0.673244 | 0.465559 | 0.430318 | 0.079* | |
H26C | 0.544756 | 0.414694 | 0.381308 | 0.079* | |
H3 | 0.508 (3) | 0.089 (3) | 0.5819 (16) | 0.052 (8)* | |
H4 | 0.611 (3) | 0.348 (2) | 0.5401 (16) | 0.048 (7)* | |
H17A | 0.599 (3) | −0.050 (2) | 0.8611 (15) | 0.053 (7)* | |
H17B | 0.401 (3) | 0.004 (2) | 0.8647 (15) | 0.050 (7)* | |
H18A | 0.590 (3) | −0.023 (2) | 0.7182 (14) | 0.044 (7)* | |
H18B | 0.398 (3) | 0.032 (2) | 0.7211 (15) | 0.048 (7)* | |
H24A | 0.573 (4) | 0.238 (3) | 0.960 (2) | 0.095 (11)* | |
H24B | 0.459 (4) | 0.138 (3) | 0.9862 (18) | 0.070 (9)* | |
H24C | 0.662 (4) | 0.096 (3) | 0.9751 (19) | 0.078 (10)* | |
N4 | 0.5513 (2) | 0.22004 (16) | 0.64328 (11) | 0.0370 (4) | |
N5 | 0.5353 (3) | 0.15779 (19) | 0.57504 (11) | 0.0384 (5) | |
N6 | 0.6022 (3) | 0.32130 (18) | 0.49376 (13) | 0.0453 (5) | |
S2 | 0.54338 (9) | 0.14458 (6) | 0.41094 (3) | 0.04489 (19) |
U11 | U22 | U33 | U12 | U13 | U23 | |
C1 | 0.0328 (13) | 0.0353 (12) | 0.0357 (12) | −0.0050 (10) | −0.0016 (9) | −0.0056 (9) |
C2 | 0.0442 (15) | 0.0375 (13) | 0.0337 (12) | −0.0094 (11) | 0.0011 (11) | −0.0002 (10) |
C3 | 0.0490 (16) | 0.0385 (14) | 0.0375 (13) | −0.0090 (12) | 0.0019 (11) | −0.0076 (10) |
C4 | 0.0383 (13) | 0.0390 (13) | 0.0335 (12) | −0.0059 (10) | 0.0031 (10) | −0.0035 (9) |
C5 | 0.0373 (13) | 0.0366 (13) | 0.0340 (12) | −0.0063 (10) | −0.0003 (9) | −0.0028 (9) |
C6 | 0.0495 (16) | 0.0426 (14) | 0.0425 (15) | −0.0161 (12) | −0.0001 (13) | −0.0023 (11) |
C7 | 0.0600 (18) | 0.0396 (15) | 0.0477 (16) | −0.0185 (13) | −0.0049 (13) | 0.0053 (11) |
C8 | 0.0541 (18) | 0.0418 (16) | 0.075 (2) | −0.0109 (13) | −0.0013 (15) | 0.0083 (14) |
C9 | 0.111 (3) | 0.0500 (19) | 0.064 (2) | −0.0098 (19) | 0.033 (2) | −0.0092 (15) |
C10 | 0.078 (2) | 0.0518 (19) | 0.067 (2) | −0.0093 (17) | 0.0050 (19) | −0.0087 (15) |
C11 | 0.0462 (15) | 0.0418 (14) | 0.0355 (13) | −0.0086 (11) | −0.0052 (10) | −0.0072 (10) |
C12 | 0.063 (2) | 0.0497 (17) | 0.0366 (14) | −0.0105 (15) | 0.0044 (13) | −0.0067 (12) |
C13 | 0.083 (2) | 0.0542 (17) | 0.0518 (16) | −0.0235 (15) | −0.0136 (14) | −0.0132 (13) |
N1 | 0.0460 (12) | 0.0425 (11) | 0.0324 (10) | −0.0114 (9) | −0.0009 (8) | −0.0029 (8) |
N2 | 0.0604 (14) | 0.0447 (13) | 0.0321 (11) | −0.0210 (11) | −0.0027 (9) | −0.0035 (9) |
N3 | 0.0715 (16) | 0.0471 (13) | 0.0372 (13) | −0.0233 (11) | −0.0059 (11) | −0.0036 (10) |
S1 | 0.0842 (5) | 0.0544 (4) | 0.0327 (3) | −0.0261 (4) | −0.0033 (3) | −0.0034 (3) |
C14 | 0.0371 (13) | 0.0325 (12) | 0.0292 (11) | −0.0085 (10) | 0.0009 (9) | −0.0039 (9) |
C15 | 0.0450 (15) | 0.0325 (13) | 0.0335 (12) | −0.0087 (11) | 0.0003 (11) | −0.0045 (9) |
C16 | 0.0585 (17) | 0.0331 (13) | 0.0319 (12) | −0.0119 (12) | 0.0020 (12) | −0.0014 (9) |
C17 | 0.0463 (14) | 0.0353 (12) | 0.0307 (12) | −0.0085 (10) | 0.0020 (10) | −0.0064 (9) |
C18 | 0.0404 (13) | 0.0338 (12) | 0.0315 (11) | −0.0110 (10) | 0.0006 (9) | −0.0057 (9) |
C19 | 0.0614 (17) | 0.0410 (14) | 0.0381 (13) | −0.0233 (12) | −0.0009 (11) | −0.0059 (10) |
C20A | 0.071 (2) | 0.0345 (16) | 0.0559 (19) | −0.0156 (15) | −0.0056 (16) | −0.0041 (13) |
C21A | 0.054 (2) | 0.0441 (19) | 0.072 (2) | −0.0135 (16) | −0.0031 (16) | −0.0019 (16) |
C22A | 0.089 (3) | 0.052 (2) | 0.049 (2) | −0.024 (2) | −0.004 (2) | −0.0035 (15) |
C23A | 0.092 (4) | 0.0384 (17) | 0.057 (3) | −0.023 (2) | −0.008 (2) | −0.0053 (17) |
C20B | 0.071 (2) | 0.0345 (16) | 0.0559 (19) | −0.0156 (15) | −0.0056 (16) | −0.0041 (13) |
C21B | 0.054 (2) | 0.0441 (19) | 0.072 (2) | −0.0135 (16) | −0.0031 (16) | −0.0019 (16) |
C22B | 0.089 (3) | 0.052 (2) | 0.049 (2) | −0.024 (2) | −0.004 (2) | −0.0035 (15) |
C23B | 0.092 (4) | 0.0384 (17) | 0.057 (3) | −0.023 (2) | −0.008 (2) | −0.0053 (17) |
C24 | 0.079 (2) | 0.0511 (18) | 0.0284 (13) | −0.0152 (16) | −0.0032 (14) | −0.0050 (11) |
C25 | 0.0385 (13) | 0.0341 (12) | 0.0324 (12) | −0.0075 (10) | 0.0000 (9) | −0.0013 (9) |
C26 | 0.0690 (18) | 0.0466 (15) | 0.0443 (14) | −0.0222 (13) | 0.0037 (13) | 0.0056 (11) |
N4 | 0.0457 (12) | 0.0375 (11) | 0.0302 (10) | −0.0129 (9) | −0.0012 (8) | −0.0067 (8) |
N5 | 0.0550 (13) | 0.0338 (11) | 0.0287 (10) | −0.0147 (10) | 0.0006 (8) | −0.0044 (8) |
N6 | 0.0667 (15) | 0.0414 (12) | 0.0314 (11) | −0.0209 (10) | 0.0021 (10) | −0.0027 (9) |
S2 | 0.0637 (4) | 0.0434 (4) | 0.0286 (3) | −0.0142 (3) | −0.0008 (3) | −0.0043 (2) |
C1—N1 | 1.285 (3) | C16—H17A | 0.98 (3) |
C1—C5 | 1.461 (3) | C16—H17B | 1.00 (3) |
C1—C2 | 1.504 (3) | C17—C18 | 1.341 (3) |
C2—C3 | 1.533 (3) | C17—C24 | 1.492 (3) |
C2—H5A | 1.00 (3) | C18—C19 | 1.506 (3) |
C2—H5B | 0.97 (3) | C19—C20B | 1.359 (14) |
C3—C4 | 1.500 (3) | C19—C20A | 1.493 (4) |
C3—H4A | 0.96 (2) | C19—H19A | 0.9700 |
C3—H4B | 0.95 (2) | C19—H19B | 0.9700 |
C4—C5 | 1.342 (3) | C19—H19C | 0.9700 |
C4—C12 | 1.488 (3) | C19—H19D | 0.9700 |
C5—C6 | 1.509 (3) | C20A—C21A | 1.339 (5) |
C6—C7 | 1.498 (4) | C20A—H20A | 0.9300 |
C6—H6A | 0.97 (2) | C21A—C22A | 1.445 (5) |
C6—H6B | 0.92 (3) | C21A—H21A | 0.9300 |
C7—C8 | 1.323 (4) | C22A—C23A | 1.530 (5) |
C7—H7 | 0.93 (3) | C22A—H22A | 0.9700 |
C8—C9 | 1.488 (5) | C22A—H22B | 0.9700 |
C8—H8 | 0.96 (3) | C23A—H23A | 0.9600 |
C9—C10 | 1.505 (5) | C23A—H23B | 0.9600 |
C9—H9A | 1.07 (4) | C23A—H23C | 0.9600 |
C9—H9B | 1.00 (4) | C20B—C21B | 1.29 (2) |
C10—H10A | 1.00 (4) | C20B—H20B | 0.9300 |
C10—H10B | 0.93 (4) | C21B—C22B | 1.56 (3) |
C10—H10C | 0.96 (4) | C21B—H21B | 0.9300 |
C11—N3 | 1.329 (3) | C22B—C23B | 1.47 (3) |
C11—N2 | 1.351 (3) | C22B—H22C | 0.9700 |
C11—S1 | 1.680 (2) | C22B—H22D | 0.9700 |
C12—H11A | 1.02 (3) | C23B—H23D | 0.9600 |
C12—H11B | 0.91 (3) | C23B—H23E | 0.9600 |
C12—H11C | 0.96 (3) | C23B—H23F | 0.9600 |
C13—N3 | 1.455 (3) | C24—H24A | 0.97 (4) |
C13—H13A | 0.9600 | C24—H24B | 1.02 (3) |
C13—H13B | 0.9600 | C24—H24C | 0.97 (3) |
C13—H13C | 0.9600 | C25—N6 | 1.335 (3) |
N1—N2 | 1.392 (3) | C25—N5 | 1.357 (3) |
N2—H1 | 0.81 (3) | C25—S2 | 1.678 (2) |
N3—H2 | 0.83 (3) | C26—N6 | 1.453 (3) |
C14—N4 | 1.292 (3) | C26—H26A | 0.9600 |
C14—C18 | 1.463 (3) | C26—H26B | 0.9600 |
C14—C15 | 1.498 (3) | C26—H26C | 0.9600 |
C15—C16 | 1.535 (3) | N4—N5 | 1.394 (2) |
C15—H18A | 0.93 (2) | N5—H3 | 0.84 (3) |
C15—H18B | 0.97 (3) | N6—H4 | 0.85 (3) |
C16—C17 | 1.505 (3) | ||
N1—C1—C5 | 122.2 (2) | C17—C16—H17B | 112.7 (14) |
N1—C1—C2 | 129.2 (2) | C15—C16—H17B | 111.6 (14) |
C5—C1—C2 | 108.56 (18) | H17A—C16—H17B | 104 (2) |
C1—C2—C3 | 104.79 (19) | C18—C17—C24 | 127.8 (2) |
C1—C2—H5A | 111.1 (15) | C18—C17—C16 | 112.35 (19) |
C3—C2—H5A | 113.8 (15) | C24—C17—C16 | 119.8 (2) |
C1—C2—H5B | 114.0 (16) | C17—C18—C14 | 109.11 (19) |
C3—C2—H5B | 111.5 (15) | C17—C18—C19 | 128.8 (2) |
H5A—C2—H5B | 102 (2) | C14—C18—C19 | 122.04 (19) |
C4—C3—C2 | 104.5 (2) | C20B—C19—C18 | 125.2 (6) |
C4—C3—H4A | 111.7 (14) | C20A—C19—C18 | 109.9 (2) |
C2—C3—H4A | 112.7 (14) | C20A—C19—H19A | 109.7 |
C4—C3—H4B | 108.8 (14) | C18—C19—H19A | 109.7 |
C2—C3—H4B | 112.6 (14) | C20A—C19—H19B | 109.7 |
H4A—C3—H4B | 107 (2) | C18—C19—H19B | 109.7 |
C5—C4—C12 | 127.4 (2) | H19A—C19—H19B | 108.2 |
C5—C4—C3 | 112.30 (19) | C20B—C19—H19C | 106.0 |
C12—C4—C3 | 120.3 (2) | C18—C19—H19C | 106.0 |
C4—C5—C1 | 109.8 (2) | C20B—C19—H19D | 106.0 |
C4—C5—C6 | 127.5 (2) | C18—C19—H19D | 106.0 |
C1—C5—C6 | 122.7 (2) | H19C—C19—H19D | 106.3 |
C7—C6—C5 | 114.0 (2) | C21A—C20A—C19 | 133.1 (3) |
C7—C6—H6A | 110.1 (13) | C21A—C20A—H20A | 113.5 |
C5—C6—H6A | 111.0 (13) | C19—C20A—H20A | 113.5 |
C7—C6—H6B | 107.0 (16) | C20A—C21A—C22A | 126.4 (4) |
C5—C6—H6B | 110.0 (17) | C20A—C21A—H21A | 116.8 |
H6A—C6—H6B | 104 (2) | C22A—C21A—H21A | 116.8 |
C8—C7—C6 | 127.3 (3) | C21A—C22A—C23A | 110.4 (3) |
C8—C7—H7 | 119.7 (17) | C21A—C22A—H22A | 109.6 |
C6—C7—H7 | 112.9 (17) | C23A—C22A—H22A | 109.6 |
C7—C8—C9 | 128.0 (3) | C21A—C22A—H22B | 109.6 |
C7—C8—H8 | 117.7 (16) | C23A—C22A—H22B | 109.6 |
C9—C8—H8 | 114.3 (15) | H22A—C22A—H22B | 108.1 |
C8—C9—C10 | 113.3 (3) | C22A—C23A—H23A | 109.5 |
C8—C9—H9A | 106 (2) | C22A—C23A—H23B | 109.5 |
C10—C9—H9A | 112 (2) | H23A—C23A—H23B | 109.5 |
C8—C9—H9B | 107 (2) | C22A—C23A—H23C | 109.5 |
C10—C9—H9B | 109 (2) | H23A—C23A—H23C | 109.5 |
H9A—C9—H9B | 110 (3) | H23B—C23A—H23C | 109.5 |
C9—C10—H10A | 113.2 (19) | C21B—C20B—C19 | 122.2 (14) |
C9—C10—H10B | 113 (2) | C21B—C20B—H20B | 118.9 |
H10A—C10—H10B | 107 (3) | C19—C20B—H20B | 118.9 |
C9—C10—H10C | 110 (2) | C20B—C21B—C22B | 157.0 (17) |
H10A—C10—H10C | 105 (3) | C20B—C21B—H21B | 101.5 |
H10B—C10—H10C | 108 (3) | C22B—C21B—H21B | 101.5 |
N3—C11—N2 | 116.2 (2) | C23B—C22B—C21B | 112.7 (18) |
N3—C11—S1 | 122.86 (18) | C23B—C22B—H22C | 109.0 |
N2—C11—S1 | 120.97 (19) | C21B—C22B—H22C | 109.0 |
C4—C12—H11A | 109.5 (17) | C23B—C22B—H22D | 109.0 |
C4—C12—H11B | 111.9 (18) | C21B—C22B—H22D | 109.0 |
H11A—C12—H11B | 108 (2) | H22C—C22B—H22D | 107.8 |
C4—C12—H11C | 112.6 (18) | C22B—C23B—H23D | 109.5 |
H11A—C12—H11C | 110 (2) | C22B—C23B—H23E | 109.5 |
H11B—C12—H11C | 105 (3) | H23D—C23B—H23E | 109.5 |
N3—C13—H13A | 109.5 | C22B—C23B—H23F | 109.5 |
N3—C13—H13B | 109.5 | H23D—C23B—H23F | 109.5 |
H13A—C13—H13B | 109.5 | H23E—C23B—H23F | 109.5 |
N3—C13—H13C | 109.5 | C17—C24—H24A | 114 (2) |
H13A—C13—H13C | 109.5 | C17—C24—H24B | 110.5 (16) |
H13B—C13—H13C | 109.5 | H24A—C24—H24B | 108 (3) |
C1—N1—N2 | 116.5 (2) | C17—C24—H24C | 110.6 (18) |
C11—N2—N1 | 119.4 (2) | H24A—C24—H24C | 109 (3) |
C11—N2—H1 | 119.8 (19) | H24B—C24—H24C | 105 (2) |
N1—N2—H1 | 120.8 (19) | N6—C25—N5 | 115.3 (2) |
C11—N3—C13 | 123.6 (2) | N6—C25—S2 | 123.71 (17) |
C11—N3—H2 | 118 (2) | N5—C25—S2 | 120.96 (17) |
C13—N3—H2 | 118 (2) | N6—C26—H26A | 109.5 |
N4—C14—C18 | 120.8 (2) | N6—C26—H26B | 109.5 |
N4—C14—C15 | 129.58 (19) | H26A—C26—H26B | 109.5 |
C18—C14—C15 | 109.57 (18) | N6—C26—H26C | 109.5 |
C14—C15—C16 | 104.14 (19) | H26A—C26—H26C | 109.5 |
C14—C15—H18A | 112.0 (15) | H26B—C26—H26C | 109.5 |
C16—C15—H18A | 112.9 (14) | C14—N4—N5 | 116.71 (18) |
C14—C15—H18B | 109.4 (14) | C25—N5—N4 | 117.8 (2) |
C16—C15—H18B | 112.9 (14) | C25—N5—H3 | 120.8 (17) |
H18A—C15—H18B | 106 (2) | N4—N5—H3 | 121.4 (17) |
C17—C16—C15 | 104.81 (19) | C25—N6—C26 | 124.3 (2) |
C17—C16—H17A | 111.6 (15) | C25—N6—H4 | 117.6 (17) |
C15—C16—H17A | 112.8 (14) | C26—N6—H4 | 118.0 (18) |
N1—C1—C2—C3 | −177.8 (2) | C15—C16—C17—C18 | 1.3 (3) |
C5—C1—C2—C3 | 0.0 (3) | C15—C16—C17—C24 | −178.2 (2) |
C1—C2—C3—C4 | 1.2 (3) | C24—C17—C18—C14 | 178.0 (2) |
C2—C3—C4—C5 | −2.2 (3) | C16—C17—C18—C14 | −1.4 (3) |
C2—C3—C4—C12 | 177.1 (2) | C24—C17—C18—C19 | −4.4 (4) |
C12—C4—C5—C1 | −176.9 (2) | C16—C17—C18—C19 | 176.2 (2) |
C3—C4—C5—C1 | 2.3 (3) | N4—C14—C18—C17 | −177.4 (2) |
C12—C4—C5—C6 | 2.3 (4) | C15—C14—C18—C17 | 0.9 (3) |
C3—C4—C5—C6 | −178.5 (2) | N4—C14—C18—C19 | 4.8 (3) |
N1—C1—C5—C4 | 176.6 (2) | C15—C14—C18—C19 | −176.9 (2) |
C2—C1—C5—C4 | −1.4 (3) | C17—C18—C19—C20B | −0.8 (9) |
N1—C1—C5—C6 | −2.7 (3) | C14—C18—C19—C20B | 176.5 (9) |
C2—C1—C5—C6 | 179.3 (2) | C17—C18—C19—C20A | −91.4 (3) |
C4—C5—C6—C7 | 73.9 (3) | C14—C18—C19—C20A | 85.9 (3) |
C1—C5—C6—C7 | −107.0 (3) | C18—C19—C20A—C21A | 139.9 (4) |
C5—C6—C7—C8 | 114.6 (3) | C19—C20A—C21A—C22A | 2.8 (6) |
C6—C7—C8—C9 | −2.1 (5) | C20A—C21A—C22A—C23A | 121.9 (4) |
C7—C8—C9—C10 | 128.0 (4) | C18—C19—C20B—C21B | −117.6 (13) |
C5—C1—N1—N2 | −179.33 (19) | C19—C20B—C21B—C22B | −4 (5) |
C2—C1—N1—N2 | −1.8 (4) | C20B—C21B—C22B—C23B | −95 (4) |
N3—C11—N2—N1 | −1.2 (3) | C18—C14—N4—N5 | 178.16 (19) |
S1—C11—N2—N1 | 178.55 (17) | C15—C14—N4—N5 | 0.2 (4) |
C1—N1—N2—C11 | 173.8 (2) | N6—C25—N5—N4 | 0.8 (3) |
N2—C11—N3—C13 | −175.1 (2) | S2—C25—N5—N4 | −179.57 (16) |
S1—C11—N3—C13 | 5.1 (4) | C14—N4—N5—C25 | −175.3 (2) |
N4—C14—C15—C16 | 178.1 (2) | N5—C25—N6—C26 | 176.9 (2) |
C18—C14—C15—C16 | −0.1 (3) | S2—C25—N6—C26 | −2.7 (4) |
C14—C15—C16—C17 | −0.6 (3) |
D—H···A | D—H | H···A | D···A | D—H···A |
N2—H1···S1i | 0.81 (3) | 2.80 (3) | 3.591 (2) | 167 (2) |
C2—H5B···S1i | 0.97 (3) | 2.90 (3) | 3.457 (2) | 117.4 (18) |
N5—H3···S2ii | 0.84 (3) | 2.75 (3) | 3.585 (2) | 172 (2) |
C15—H18A···S2ii | 0.93 (2) | 2.98 (2) | 3.472 (2) | 115.0 (17) |
Symmetry codes: (i) −x, −y, −z+2; (ii) −x+1, −y, −z+1. |
Compound | Atom chain | Torsion angle | Atom chain | Torsion angle |
JMTSC-1 | N1/N2/C11/N3 | -1.2 (3) | C5/C6/C7/C8 | 114.6 (3) |
JMTSC-1 | N1/N2/C11/S1 | 178.55 (17) | C7/C8/C9/C10 | 128.0 (4) |
JMTSC-2 | N4/N5/C25/N6 | 0.8 (3) | C18/C19/C20A/C21A | 139.9 (4) |
JMTSC-2 | N4/N5/C25/S2 | -179.57 (16) | C18/C19/C20B/C21B | -117.6 (13) |
C20A/C21A/C22A/C23A | 121.9 (4) | |||
C20B/C21B/C22B/C23B | -95 (4) | |||
Fragment | Max. deviationa | r.m.s.d. | Angleb | |
JMTSC-1 | N1/N2/C11/S1/N3 | -0.0115 (16) [N2] | 0.0078 | |
JMTSC-1 | C1-C5 ring | 0.0130 (16) [C4] | 0.0089 | 8.9 (1) |
JMTSC-2 | N4/N5/C25/S2/N6 | 0.0052 (14) [N5] | 0.0031 | |
JMTSC-2 | C14-C18 ring | 0.0078 (16) [C17] | 0.0054 | 6.3 (1) |
Bond lengthsc | N—N | N—C | C=S | |
JMTSC-1 | 1.392 (3) | 1.351 (3) | 1.680 (2) | |
JMTSC-2 | 1.394 (2) | 1.357 (3) | 1.678 (2) |
Notes: (a) The maximum deviation from the mean plane through the selected atoms; (b) angle to previous plane; (c) bond lengths for the N1/N2/C11/S1 and N4/N5/C25/S2 entities. |
Acknowledgements
We gratefully acknowledge financial support by the State of North Rhine-Westphalia, Germany. ABO is a former DAAD scholarship holder and alumnus of the University of Bonn, Germany, and thanks both of the institutions for the long-time support.
Funding information
Funding for this research was provided by: Coordenação de Aperfeiçoamento de Pessoal de Nível Superior - Brazil (CAPES) - Finance Code 001.
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