Literature DB >> 23723808

rac-5-(1-Methyl-eth-yl)-2-sulfanylidene-imidazolidin-4-one.

Rosane de P Castro1, Fernando C Macedo, Tiago O Brito, Angelo de Fátima, José R Sabino.   

Abstract

In the title compound, C6H10N2OS, the 2-sulfanylideneimidazolidin-4-one fragment is essentially planar (r.m.s. deviation = 0.0033 Å). In the crystal, one amino group is involved in N-H⋯O hydrogen bonding, which links pairs of mol-ecules into inversion dimers, while the other amino group generates weak N-H⋯S hydrogen bonds, which link these dimers into chains in [10-1]. The chains are further aggregated into layers parallel to the ac plane through weak C-H⋯O inter-actions.

Entities:  

Year:  2013        PMID: 23723808      PMCID: PMC3647842          DOI: 10.1107/S1600536813008337

Source DB:  PubMed          Journal:  Acta Crystallogr Sect E Struct Rep Online        ISSN: 1600-5368


Related literature

For the biological activity of 2-thio­hydantoin derivatives, see: Ghoneim et al. (1987 ▶); Marton et al. (1993 ▶). For the crystal structures of related compounds, see: Kunimoto et al. (2009 ▶); Ogawa et al. (2007 ▶). For details of the synthesis, see: Wang et al. (2006 ▶).

Experimental

Crystal data

C6H10N2OS M = 158.23 Monoclinic, a = 5.7161 (1) Å b = 17.4091 (4) Å c = 8.2505 (2) Å β = 103.513 (1)° V = 798.30 (3) Å3 Z = 4 Mo Kα radiation μ = 0.34 mm−1 T = 308 K 0.93 × 0.4 × 0.3 mm

Data collection

Bruker APEXII CCD diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2010 ▶) T min = 0.936, T max = 0.979 18741 measured reflections 3064 independent reflections 2544 reflections with I > 2σ(I) R int = 0.020

Refinement

R[F 2 > 2σ(F 2)] = 0.037 wR(F 2) = 0.114 S = 1.02 3064 reflections 93 parameters H-atom parameters constrained Δρmax = 0.33 e Å−3 Δρmin = −0.20 e Å−3 Data collection: APEX2 (Bruker, 2010 ▶); cell refinement: SAINT (Bruker, 2010 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 for Windows (Farrugia, 2012 ▶); software used to prepare material for publication: WinGX (Farrugia, 2012 ▶). Click here for additional data file. Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536813008337/cv5395sup1.cif Click here for additional data file. Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536813008337/cv5395Isup2.hkl Click here for additional data file. Supplementary material file. DOI: 10.1107/S1600536813008337/cv5395Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C6H10N2OSF(000) = 336
Mr = 158.23Dx = 1.316 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 637 reflections
a = 5.7161 (1) Åθ = 7.0–60.8°
b = 17.4091 (4) ŵ = 0.34 mm1
c = 8.2505 (2) ÅT = 308 K
β = 103.513 (1)°Prism, colourless
V = 798.30 (3) Å30.93 × 0.4 × 0.3 mm
Z = 4
Bruker APEXII CCD diffractometer2544 reflections with I > 2σ(I)
Multilayer optics monochromatorRint = 0.020
φ and ω scansθmax = 34.3°, θmin = 2.3°
Absorption correction: multi-scan (SADABS; Bruker, 2010)h = −9→8
Tmin = 0.936, Tmax = 0.979k = −26→27
18741 measured reflectionsl = −12→13
3064 independent reflections
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.037Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.114H-atom parameters constrained
S = 1.02w = 1/[σ2(Fo2) + (0.0671P)2 + 0.0869P] where P = (Fo2 + 2Fc2)/3
3064 reflections(Δ/σ)max = 0.002
93 parametersΔρmax = 0.33 e Å3
0 restraintsΔρmin = −0.20 e Å3
Geometry. All s.u.'s (except the s.u. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell s.u.'s are taken into account individually in the estimation of s.u.'s in distances, angles and torsion angles; correlations between s.u.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell s.u.'s is used for estimating s.u.'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 > 2σ(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.
xyzUiso*/Ueq
S10.50440 (6)0.579973 (16)0.22144 (4)0.04944 (11)
C10.31293 (17)0.50804 (5)0.22060 (11)0.03529 (18)
N10.25674 (18)0.45108 (5)0.11098 (10)0.0431 (2)
H10.31880.4460.02620.052*
C30.07920 (18)0.39803 (6)0.14899 (11)0.03667 (18)
H3−0.06820.40050.06020.044*
C40.16814 (19)0.31474 (5)0.16973 (13)0.0415 (2)
H40.22760.30150.07110.05*
C5−0.0352 (2)0.25955 (7)0.17693 (18)0.0568 (3)
H5A−0.09050.26890.27640.085*
H5B0.02190.20770.17780.085*
H5C−0.16550.26720.08110.085*
C60.3773 (2)0.30522 (7)0.3219 (2)0.0595 (3)
H6C0.50110.34170.31630.089*
H6B0.44080.25410.32360.089*
H6A0.32150.31390.42140.089*
C20.03374 (17)0.43453 (5)0.30588 (12)0.03636 (18)
O1−0.10205 (16)0.41213 (5)0.38922 (12)0.0516 (2)
N20.17754 (15)0.49851 (5)0.33699 (11)0.03987 (18)
H20.18250.52910.41960.048*
U11U22U33U12U13U23
S10.0669 (2)0.04239 (16)0.04620 (17)−0.02026 (11)0.02773 (13)−0.00744 (10)
C10.0445 (4)0.0311 (4)0.0333 (4)−0.0024 (3)0.0153 (3)0.0008 (3)
N10.0626 (5)0.0386 (4)0.0348 (4)−0.0127 (4)0.0248 (4)−0.0050 (3)
C30.0431 (4)0.0368 (4)0.0320 (4)−0.0061 (3)0.0126 (3)−0.0032 (3)
C40.0497 (5)0.0335 (4)0.0486 (5)−0.0080 (4)0.0263 (4)−0.0118 (4)
C50.0625 (7)0.0448 (6)0.0676 (7)−0.0212 (5)0.0242 (6)−0.0143 (5)
C60.0440 (5)0.0419 (5)0.0917 (10)0.0023 (4)0.0142 (6)0.0060 (6)
C20.0379 (4)0.0328 (4)0.0431 (4)−0.0009 (3)0.0190 (3)−0.0048 (3)
O10.0562 (5)0.0449 (4)0.0667 (5)−0.0122 (3)0.0406 (4)−0.0155 (4)
N20.0486 (4)0.0345 (4)0.0431 (4)−0.0074 (3)0.0239 (3)−0.0096 (3)
S1—C11.6621 (9)C4—H40.98
C1—N11.3300 (12)C5—H5A0.96
C1—N21.3769 (12)C5—H5B0.96
N1—C31.4595 (12)C5—H5C0.96
N1—H10.86C6—H6C0.96
C3—C21.5179 (13)C6—H6B0.96
C3—C41.5328 (14)C6—H6A0.96
C3—H30.98C2—O11.2152 (12)
C4—C51.5200 (14)C2—N21.3724 (12)
C4—C61.5269 (18)N2—H20.86
N1—C1—N2107.37 (8)C4—C5—H5A109.5
N1—C1—S1128.23 (7)C4—C5—H5B109.5
N2—C1—S1124.39 (7)H5A—C5—H5B109.5
C1—N1—C3113.28 (8)C4—C5—H5C109.5
C1—N1—H1123.4H5A—C5—H5C109.5
C3—N1—H1123.4H5B—C5—H5C109.5
N1—C3—C2100.63 (7)C4—C6—H6C109.5
N1—C3—C4113.17 (8)C4—C6—H6B109.5
C2—C3—C4114.79 (8)H6C—C6—H6B109.5
N1—C3—H3109.3C4—C6—H6A109.5
C2—C3—H3109.3H6C—C6—H6A109.5
C4—C3—H3109.3H6B—C6—H6A109.5
C5—C4—C6111.00 (10)O1—C2—N2126.04 (9)
C5—C4—C3111.44 (9)O1—C2—C3127.40 (9)
C6—C4—C3111.72 (8)N2—C2—C3106.55 (8)
C5—C4—H4107.5C2—N2—C1112.15 (8)
C6—C4—H4107.5C2—N2—H2123.9
C3—C4—H4107.5C1—N2—H2123.9
N2—C1—N1—C3−0.87 (12)N1—C3—C2—O1−179.83 (11)
S1—C1—N1—C3−179.62 (7)C4—C3—C2—O1−57.99 (15)
C1—N1—C3—C20.55 (11)N1—C3—C2—N2−0.03 (10)
C1—N1—C3—C4−122.43 (10)C4—C3—C2—N2121.82 (9)
N1—C3—C4—C5−169.42 (9)O1—C2—N2—C1179.33 (11)
C2—C3—C4—C575.83 (11)C3—C2—N2—C1−0.49 (11)
N1—C3—C4—C665.78 (11)N1—C1—N2—C20.84 (12)
C2—C3—C4—C6−48.97 (12)S1—C1—N2—C2179.65 (7)
D—H···AD—HH···AD···AD—H···A
N2—H2···O1i0.862.022.8573 (11)164
N1—H1···S1ii0.862.523.3806 (9)176
C6—H6C···O1iii0.962.523.4434 (14)160
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
N2—H2⋯O1i 0.862.022.8573 (11)164
N1—H1⋯S1ii 0.862.523.3806 (9)176
C6—H6C⋯O1iii 0.962.523.4434 (14)160

Symmetry codes: (i) ; (ii) ; (iii) .

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1.  A short history of SHELX.

Authors:  George M Sheldrick
Journal:  Acta Crystallogr A       Date:  2007-12-21       Impact factor: 2.290

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Authors:  Zerong Daniel Wang; Samia O Sheikh; Yulu Zhang
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