supplementary materials


sj5395 scheme

Acta Cryst. (2014). E70, o515    [ doi:10.1107/S1600536814007028 ]

1-{[(Z)-Cyclo­pentyl­idene]amino}-3-phenyl­thio­urea

J. T. Mague, S. K. Mohamed, M. Akkurt, A. A. Hassan and M. R. Albayati

CCDC reference: 994387

Abstract top

The sample of the title compound, C12H15N3S, chosen for study consisted of triclinic crystals twinned by a 180° rotation about the a axis. The five-membered ring adopts a twisted conformation. The dihedral angle between the phenyl ring and the mean plane of the thio­urea unit is 78.22 (8)°. In the crystal, molecules are linked via pairs of N-H...S hydrogen bonds forming inversion dimers.

Comment top

For the past few decades, thiourea derivatives have attracted great attention not only because they are important building blocks in the synthesis of heterocycles and organo-metal complexes (Yin et al., 2008) but also due to their broad spectrum of biological activities such as anti-bacterial, anti-cancer (Saeed et al., 2010), anti-malarial (Solomon et al., 2010), anti-tuberculosis (Karakuş & Rollas 2002) anti-convulsion, analgesic and HDL-elevating properties. In addition, metal complex of thiourea derivatives exhibit anti-inflammatory, anti-cancer and anti-fungal activities (Abdullah & Salh, 2010). Furthermore, the thiourea structure contains a central hydrophilic part and two hydrophobic moieties forming a butterfly-like conformation. This conformation is a part of the structure of an anti-HIV agent (Struga et al., 2009).

Fig. 1 shows a perspective view of the title compound (I). The five-membered ring (C1–C5) adopts a twisted conformation, [the puckering parameters (Cremer & Pople, 1975) are Q(2) = 0.316 (2) Å and φ(2) = 85.7 (4)°]. The dihedral angle between the phenyl ring and the least-squares plane of the thiourea moiety is 78.22 (8)°.

In the crystal structure, the molecules are connected by weak N—H···S interactions (Fig. 2 and Table 1).

Related literature top

For the use of thiourea as a building-block in the synthesis of heterocycles, see: Yin et al. (2008). For the diverse biological properties of thiourea-containing compounds and their metal complexes, see: Saeed et al. (2010); Solomon et al. (2010); Karakuş & Rollas (2002); Abdullah & Salh (2010). For the synthesis of the title compound, see: Akkurt et al. (2014). For structural studies on thiourea derivatives, see: Struga et al. (2009). For ring-puckering parameters, see: Cremer & Pople (1975).

Experimental top

The title compound was prepared according to our previously reported method (Akkurt et al., 2014). Colourless crystals suitable for X-ray diffraction were obtained by crystallization of (I) from ethanol.

Refinement top

H-atoms attached to carbon were placed in calculated positions (C—H = 0.95 - 0.98 Å) while those attached to nitrogen were placed in locations derived from a difference map and their parameters adjusted to give N—H = 0.91 Å. All were included as riding contributions with isotropic displacement parameters 1.2 - 1.5 times those of the attached atoms. The crystal used proved to be twinned by a 180° rotation about a, CELL_NOW, (Sheldrick, 2008a) and the final structure was refined as a 2-component twin with a refined value for the minor twin fraction of 0.23070 (18).

Computing details top

Data collection: APEX2 (Bruker, 2013); cell refinement: SAINT (Bruker, 2013); data reduction: SAINT (Bruker, 2013) and CELL_NOW (Sheldrick, 2008a); program(s) used to solve structure: SHELXS2013 (Sheldrick, 2008a); program(s) used to refine structure: SHELXL2013 (Sheldrick, 2008a); molecular graphics: DIAMOND (Brandenburg & Putz, 2012); software used to prepare material for publication: SHELXTL (Sheldrick, 2008a).

Figures top
[Figure 1] Fig. 1. Perspective view of I with 50% probability displacement ellipsoids.
[Figure 2] Fig. 2. Packing viewed down the a axis and showing N—H···S interactions.
1-{[(Z)-Cyclopentylidene]amino}-3-phenylthiourea top
Crystal data top
C12H15N3SZ = 2
Mr = 233.33F(000) = 248
Triclinic, P1Dx = 1.304 Mg m3
a = 7.3997 (2) ÅCu Kα radiation, λ = 1.54178 Å
b = 7.5790 (1) ÅCell parameters from 8773 reflections
c = 11.4657 (2) Åθ = 4.0–70.0°
α = 93.0220 (9)°µ = 2.21 mm1
β = 105.4530 (9)°T = 100 K
γ = 104.7070 (8)°Plate, colourless
V = 594.45 (2) Å30.21 × 0.10 × 0.04 mm
Data collection top
Bruker D8 VENTURE PHOTON 100 CMOS
diffractometer
11360 independent reflections
Radiation source: INCOATEC IµS micro–focus source9454 reflections with I > 2σ(I)
Mirror monochromatorRint = 0.026
Detector resolution: 10.4167 pixels mm-1θmax = 70.0°, θmin = 4.0°
ω scansh = 88
Absorption correction: multi-scan
(TWINABS; Sheldrick, 2009)
k = 99
Tmin = 0.65, Tmax = 0.92l = 1313
11363 measured reflections
Refinement top
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.040Hydrogen site location: mixed
wR(F2) = 0.097H-atom parameters constrained
S = 1.03 w = 1/[σ2(Fo2) + (0.039P)2 + 0.1956P]
where P = (Fo2 + 2Fc2)/3
11360 reflections(Δ/σ)max = 0.001
146 parametersΔρmax = 0.28 e Å3
0 restraintsΔρmin = 0.20 e Å3
Crystal data top
C12H15N3Sγ = 104.7070 (8)°
Mr = 233.33V = 594.45 (2) Å3
Triclinic, P1Z = 2
a = 7.3997 (2) ÅCu Kα radiation
b = 7.5790 (1) ŵ = 2.21 mm1
c = 11.4657 (2) ÅT = 100 K
α = 93.0220 (9)°0.21 × 0.10 × 0.04 mm
β = 105.4530 (9)°
Data collection top
Bruker D8 VENTURE PHOTON 100 CMOS
diffractometer
11360 independent reflections
Absorption correction: multi-scan
(TWINABS; Sheldrick, 2009)
9454 reflections with I > 2σ(I)
Tmin = 0.65, Tmax = 0.92Rint = 0.026
11363 measured reflectionsθmax = 70.0°
Refinement top
R[F2 > 2σ(F2)] = 0.040H-atom parameters constrained
wR(F2) = 0.097Δρmax = 0.28 e Å3
S = 1.03Δρmin = 0.20 e Å3
11360 reflectionsAbsolute structure: ?
146 parametersAbsolute structure parameter: ?
0 restraintsRogers parameter: ?
Special details top

Experimental. Analysis of 985 reflections having I/σ(I) > 15 and chosen from the full data set with CELL_NOW (Sheldrick, 2008a) showed the crystal to belong to the triclinic system and to be twinned by a 180° rotation about the a axis. The raw data were processed using the multi-component version of SAINT under control of the two-component orientation file generated by CELL_NOW.

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. H-atoms attached to carbon were placed in calculated positions (C—H = 0.95 - 0.99 Å) while those attached to nitrogen were placed in locations derived from a difference map and their parameters adjusted to give N—H = 0.91 Å. All were included as riding contributions with isotropic displacement parameters 1.2 times those of the attached atoms. Refined as a 2-component twin.

Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2) top
xyzUiso*/Ueq
S10.89113 (8)1.01459 (7)0.81488 (4)0.02372 (18)
N10.7313 (2)0.5215 (2)0.90890 (15)0.0216 (4)
N20.8223 (3)0.7082 (2)0.91604 (15)0.0213 (4)
H20.88590.78240.98800.026*
N30.7179 (2)0.6693 (2)0.70759 (14)0.0226 (4)
H30.66680.54830.71260.027*
C10.7350 (3)0.4552 (3)1.01002 (18)0.0201 (5)
C20.8303 (3)0.5512 (3)1.13816 (17)0.0221 (5)
H2A0.79890.66951.14800.027*
H2B0.97390.57491.16000.027*
C30.7435 (3)0.4160 (3)1.21708 (19)0.0274 (5)
H3A0.84000.42441.29730.033*
H3B0.62580.44241.23060.033*
C40.6913 (3)0.2257 (3)1.14529 (19)0.0280 (5)
H4A0.58200.13991.16560.034*
H4B0.80490.17481.16350.034*
C50.6317 (3)0.2559 (3)1.01077 (19)0.0242 (5)
H5A0.67420.17360.96040.029*
H5B0.48850.23260.97910.029*
C60.8052 (3)0.7858 (3)0.81110 (18)0.0201 (5)
C70.6780 (3)0.7262 (3)0.58782 (18)0.0240 (5)
C80.8249 (4)0.7674 (3)0.5318 (2)0.0358 (6)
H80.95270.76190.57290.043*
C90.7831 (5)0.8171 (4)0.4146 (2)0.0453 (7)
H90.88270.84580.37510.054*
C100.5971 (5)0.8248 (3)0.3557 (2)0.0448 (7)
H100.56900.85820.27550.054*
C110.4526 (4)0.7845 (3)0.4123 (2)0.0410 (7)
H110.32490.79060.37140.049*
C120.4930 (4)0.7346 (3)0.5295 (2)0.0309 (5)
H120.39330.70660.56900.037*
Atomic displacement parameters (Å2) top
U11U22U33U12U13U23
S10.0326 (3)0.0182 (3)0.0185 (3)0.0051 (2)0.0058 (2)0.0045 (2)
N10.0248 (10)0.0173 (9)0.0231 (9)0.0043 (8)0.0089 (8)0.0044 (7)
N20.0278 (10)0.0178 (9)0.0159 (9)0.0025 (7)0.0058 (7)0.0029 (7)
N30.0303 (10)0.0178 (9)0.0165 (9)0.0016 (8)0.0056 (8)0.0036 (7)
C10.0203 (11)0.0204 (11)0.0229 (11)0.0082 (9)0.0091 (9)0.0057 (9)
C20.0244 (11)0.0220 (11)0.0208 (11)0.0067 (9)0.0070 (9)0.0062 (9)
C30.0293 (12)0.0298 (12)0.0225 (11)0.0056 (10)0.0078 (10)0.0104 (9)
C40.0264 (12)0.0257 (12)0.0333 (13)0.0064 (10)0.0097 (10)0.0135 (10)
C50.0263 (12)0.0198 (11)0.0276 (12)0.0053 (9)0.0104 (10)0.0053 (9)
C60.0197 (11)0.0235 (11)0.0196 (10)0.0076 (9)0.0076 (9)0.0062 (9)
C70.0369 (13)0.0156 (10)0.0161 (10)0.0031 (10)0.0064 (10)0.0015 (8)
C80.0437 (15)0.0386 (14)0.0242 (12)0.0061 (12)0.0133 (11)0.0051 (10)
C90.073 (2)0.0360 (14)0.0241 (13)0.0004 (14)0.0238 (14)0.0033 (11)
C100.088 (2)0.0192 (12)0.0158 (12)0.0041 (13)0.0058 (14)0.0039 (9)
C110.0595 (18)0.0246 (13)0.0279 (13)0.0113 (12)0.0054 (13)0.0043 (10)
C120.0402 (15)0.0224 (11)0.0269 (12)0.0075 (11)0.0054 (11)0.0040 (9)
Geometric parameters (Å, º) top
S1—C61.682 (2)C4—C51.533 (3)
N1—C11.284 (2)C4—H4A0.9900
N1—N21.392 (2)C4—H4B0.9900
N2—C61.357 (2)C5—H5A0.9900
N2—H20.9098C5—H5B0.9900
N3—C61.341 (3)C7—C121.373 (3)
N3—C71.439 (2)C7—C81.382 (3)
N3—H30.9098C8—C91.391 (3)
C1—C21.503 (3)C8—H80.9500
C1—C51.512 (3)C9—C101.379 (4)
C2—C31.535 (3)C9—H90.9500
C2—H2A0.9900C10—C111.373 (4)
C2—H2B0.9900C10—H100.9500
C3—C41.526 (3)C11—C121.391 (3)
C3—H3A0.9900C11—H110.9500
C3—H3B0.9900C12—H120.9500
C1—N1—N2117.12 (17)C1—C5—C4104.55 (17)
C6—N2—N1118.43 (17)C1—C5—H5A110.8
C6—N2—H2118.3C4—C5—H5A110.8
N1—N2—H2123.1C1—C5—H5B110.8
C6—N3—C7123.96 (16)C4—C5—H5B110.8
C6—N3—H3118.7H5A—C5—H5B108.9
C7—N3—H3116.9N3—C6—N2115.83 (18)
N1—C1—C2128.72 (18)N3—C6—S1123.58 (14)
N1—C1—C5120.66 (18)N2—C6—S1120.59 (16)
C2—C1—C5110.61 (16)C12—C7—C8120.89 (19)
C1—C2—C3104.01 (17)C12—C7—N3119.41 (19)
C1—C2—H2A111.0C8—C7—N3119.68 (19)
C3—C2—H2A111.0C7—C8—C9119.1 (2)
C1—C2—H2B111.0C7—C8—H8120.4
C3—C2—H2B111.0C9—C8—H8120.4
H2A—C2—H2B109.0C10—C9—C8120.0 (3)
C4—C3—C2105.41 (17)C10—C9—H9120.0
C4—C3—H3A110.7C8—C9—H9120.0
C2—C3—H3A110.7C11—C10—C9120.4 (2)
C4—C3—H3B110.7C11—C10—H10119.8
C2—C3—H3B110.7C9—C10—H10119.8
H3A—C3—H3B108.8C10—C11—C12120.0 (2)
C3—C4—C5105.07 (16)C10—C11—H11120.0
C3—C4—H4A110.7C12—C11—H11120.0
C5—C4—H4A110.7C7—C12—C11119.6 (2)
C3—C4—H4B110.7C7—C12—H12120.2
C5—C4—H4B110.7C11—C12—H12120.2
H4A—C4—H4B108.8
C1—N1—N2—C6173.97 (17)N1—N2—C6—N36.8 (3)
N2—N1—C1—C21.9 (3)N1—N2—C6—S1173.42 (14)
N2—N1—C1—C5177.10 (17)C6—N3—C7—C12100.6 (2)
N1—C1—C2—C3166.7 (2)C6—N3—C7—C880.9 (3)
C5—C1—C2—C312.4 (2)C12—C7—C8—C90.3 (3)
C1—C2—C3—C427.7 (2)N3—C7—C8—C9178.2 (2)
C2—C3—C4—C532.9 (2)C7—C8—C9—C100.0 (4)
N1—C1—C5—C4173.24 (18)C8—C9—C10—C110.3 (4)
C2—C1—C5—C47.6 (2)C9—C10—C11—C120.3 (4)
C3—C4—C5—C124.8 (2)C8—C7—C12—C110.3 (3)
C7—N3—C6—N2176.88 (18)N3—C7—C12—C11178.16 (19)
C7—N3—C6—S13.4 (3)C10—C11—C12—C70.0 (3)
Hydrogen-bond geometry (Å, º) top
D—H···AD—HH···AD···AD—H···A
N2—H2···S1i0.912.563.4636 (18)172
Symmetry code: (i) x+2, y+2, z+2.
Hydrogen-bond geometry (Å, º) top
D—H···AD—HH···AD···AD—H···A
N2—H2···S1i0.912.563.4636 (18)172
Symmetry code: (i) x+2, y+2, z+2.
Acknowledgements top

The support of NSF–MRI grant No. 1228232 for the purchase of the diffractometer is gratefully acknowledged.

references
References top

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Akkurt, M., Mohamed, S. K., Mague, J. T., Hassan, A. A. & Albayati, M. R. (2014). Acta Cryst. E70, o359.

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