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Acta Crystallographica Section E: Structure Reports Online logoLink to Acta Crystallographica Section E: Structure Reports Online
. 2009 Feb 6;65(Pt 3):o468. doi: 10.1107/S1600536809003882

3-Benzyl-5-butyl-1,3,5-thia­diazinane-2-thione

Mohammad Arfan a, M Nawaz Tahir b,*, Muhammad Ishaq Ali Shah a, Mohammad S Iqbal c
PMCID: PMC2968617  PMID: 21582139

Abstract

In the title compound, C14H20N2S2, the 1,3,5-thia­diazinane-2-thione ring adopts an envelope conformation. The S=C bond length is 1.6776 (15) Å, whereas the S—C bond lengths are 1.7470 (15) and 1.8479 (17) Å. The intramolecular C—H⋯S hydrogen bond between the thione and the benzyl units along with the C—H⋯π interaction between the butyl group and the centroid of the benzene ring may be effective in stabilizing the molecule.

Related literature

For the synthesis of the 1,3,5-thia­diazinane-2-thione nucleus, see: Aboul-fadi et al. (2002); Ertan et al. (1991, 1996). For its biological activity, see: Coro et al. (2005). For a related structure, see: Perez et al. (2001). For bond-length data, see: Allen (2002);graphic file with name e-65-0o468-scheme1.jpg

Experimental

Crystal data

  • C14H20N2S2

  • M r = 280.44

  • Triclinic, Inline graphic

  • a = 7.6559 (2) Å

  • b = 9.9586 (3) Å

  • c = 11.1531 (4) Å

  • α = 66.917 (2)°

  • β = 70.649 (1)°

  • γ = 76.076 (2)°

  • V = 732.03 (4) Å3

  • Z = 2

  • Mo Kα radiation

  • μ = 0.35 mm−1

  • T = 296 (2) K

  • 0.26 × 0.20 × 0.18 mm

Data collection

  • Bruker Kappa APEXII CCD diffractometer

  • Absorption correction: multi-scan (SADABS; Bruker, 2005) T min = 0.922, T max = 0.942

  • 15790 measured reflections

  • 3759 independent reflections

  • 2990 reflections with I > 2σ(I)

  • R int = 0.025

Refinement

  • R[F 2 > 2σ(F 2)] = 0.035

  • wR(F 2) = 0.100

  • S = 1.03

  • 3759 reflections

  • 163 parameters

  • H-atom parameters constrained

  • Δρmax = 0.22 e Å−3

  • Δρmin = −0.20 e Å−3

Data collection: APEX2 (Bruker, 2007); cell refinement: APEX2; data reduction: SAINT (Bruker, 2007); 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, 1997) and PLATON (Spek, 2003); software used to prepare material for publication: WinGX (Farrugia, 1999) and PLATON (Spek, 2003).

Supplementary Material

Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536809003882/at2719sup1.cif

e-65-0o468-sup1.cif (20.2KB, cif)

Structure factors: contains datablocks I. DOI: 10.1107/S1600536809003882/at2719Isup2.hkl

e-65-0o468-Isup2.hkl (180.5KB, hkl)

Additional supplementary materials: crystallographic information; 3D view; checkCIF report

Table 1. Hydrogen-bond geometry (Å, °).

D—H⋯A D—H H⋯A DA D—H⋯A
C7—H7B⋯S1 0.97 2.60 3.0978 (16) 112
C12—H12B⋯CgA 0.97 2.96 3.7937 (19) 145

CgA is the centroid of the C1–C6 ring.

Acknowledgments

The authors acknowledge the Higher Education Commission, Islamabad, Pakistan, for funding the purchase of the diffractometer at GCU, Lahore.

supplementary crystallographic information

Comment

1,3,5-Thiadiazinane-2-thione nucleus is an important pharmacophoric nucleus and large number of its analogs have been synthesized through different synthetic approaches, including amines and carbon disulfide in aqueous KOH, via diathiocarbamate salt intermediate (Ertan et al., 1991), from isothiocyanates and amines (Ertan et al., 1996), and resin supported solid phase organic synthesis (Aboul-fadi et al., 2002). Diverse bioactivities including antibacterial, antifungal, antimycobactarial, antitubercular, antiprotozoal, leishmanicidal, nematocidal and antiviral are reported for this nucleus in the literature (Coro et al., 2005).

The crystal structure of 5-(2-carboxyethyl)-3-(fur-2-ylmethyl)-tetrahydro- 2H-1,3,5-thiadiazine-2-thione (Perez et al., 2001) contains the same heterocyclic ring as the title compound (I), (Fig 1). The heterocyclic ring is in envelop form with the group (N1/C8/S2/C10/C9) in plane and the N2 displaced by -0.6778 (17) Å from it. The dihedral angle between the benzene ring A(C1—C6) and this group is 81.22 (5)°. The CCDC search (Allen et al., 2002) showed that there are very few crystal structures having 1,3,5-thiadiazinane-2-thione nucleus, so some important bond lengths and bond angles are given in Table 1.

There are no indications of intermolecular contacts, however some weak intramolecular H-bonding is given in Table 2 [CgA is a centroid of the phenyl ring C1–C6].

Experimental

The 1,3,5-thiadizinane thione was synthesized following the synthetic procedure reported by Ertan et al., 1991. Carbon disulfide (20 mmol) was added portion-wise to a magnetically stirred solution of benzylamine (2.18 ml, 20 mmol) and potassium hydroxide (20 mmol) in 30 ml of water. The contents were stirred for 4 h at room temperature. Formaldehyde (37%, 40 mmol) was added to the reaction mixture and stirred for further 1 h. The reaction content was filtered and the filtrate was added drop-wise to a suspension of n-butylamine (1.97 ml, 20 mmol) to the phosphate buffer (pH 7.8) and stirred for 1 h at ambient temperature. The filterate of the reaction mixture was exhaustively extracted with dichloromethane. The aqueous reaction content was acidified with 15% HCl. The precipitated product was filtered off under suction and thoroughly washed with water. The air dried product was re-crystallized from ethanol. A colourless crystalline product [yield: 76%, m.p.: 381–383 K] was obtained.

Refinement

H-atoms were positioned geometrically, with C—H = 0.93, 0.96 and 0.97 Å for aromatic, methyl and methylene H, and constrained to ride on their parent atoms, with Uiso(H) = xUeq(C), where x = 1.5 for methyl H, and x = 1.2 for all other H atoms.

Figures

Fig. 1.

Fig. 1.

ORTEP drawing of the title compound, with the atom numbering scheme. The thermal ellipsoids are drawn at the 30% probability level. H-atoms are shown by small circles of arbitrary radii. The intramolecular H-bonding is shown by dotted lines.

Crystal data

C14H20N2S2 Z = 2
Mr = 280.44 F(000) = 300
Triclinic, P1 Dx = 1.272 Mg m3
Hall symbol: -P 1 Mo Kα radiation, λ = 0.71073 Å
a = 7.6559 (2) Å Cell parameters from 2990 reflections
b = 9.9586 (3) Å θ = 2.1–28.7°
c = 11.1531 (4) Å µ = 0.35 mm1
α = 66.917 (2)° T = 296 K
β = 70.649 (1)° Prismatic, colourless
γ = 76.076 (2)° 0.26 × 0.20 × 0.18 mm
V = 732.03 (4) Å3

Data collection

Bruker Kappa APEXII CCD diffractometer 3759 independent reflections
Radiation source: fine-focus sealed tube 2990 reflections with I > 2σ(I)
graphite Rint = 0.025
Detector resolution: 7.40 pixels mm-1 θmax = 28.7°, θmin = 2.1°
ω scans h = −10→10
Absorption correction: multi-scan (SADABS; Bruker, 2005) k = −12→13
Tmin = 0.922, Tmax = 0.942 l = −15→14
15790 measured reflections

Refinement

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)] = 0.035 Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.100 H-atom parameters constrained
S = 1.03 w = 1/[σ2(Fo2) + (0.0507P)2 + 0.1133P] where P = (Fo2 + 2Fc2)/3
3759 reflections (Δ/σ)max < 0.001
163 parameters Δρmax = 0.22 e Å3
0 restraints Δρmin = −0.20 e Å3

Special details

Geometry. Bond distances, angles etc. have been calculated using the rounded fractional coordinates. All su's are estimated from the variances of the (full) variance-covariance matrix. The cell e.s.d.'s are taken into account in the estimation of distances, angles and torsion angles
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.

Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2)

x y z Uiso*/Ueq
S1 0.37143 (5) 0.10537 (5) 0.24801 (4) 0.0559 (1)
S2 0.72763 (5) 0.05293 (4) 0.29926 (4) 0.0542 (1)
N1 0.44875 (14) 0.24375 (12) 0.38422 (10) 0.0392 (3)
N2 0.76229 (15) 0.27317 (13) 0.37678 (11) 0.0446 (3)
C1 0.25768 (16) 0.48352 (15) 0.31596 (13) 0.0404 (4)
C2 0.20907 (19) 0.59310 (17) 0.37238 (15) 0.0501 (5)
C3 0.2155 (3) 0.73893 (19) 0.2912 (2) 0.0663 (6)
C4 0.2704 (3) 0.7760 (2) 0.1528 (2) 0.0733 (7)
C5 0.3168 (3) 0.6681 (2) 0.09567 (17) 0.0680 (6)
C6 0.3104 (2) 0.52245 (18) 0.17638 (15) 0.0525 (5)
C7 0.25828 (17) 0.32402 (15) 0.40427 (14) 0.0447 (4)
C8 0.50163 (17) 0.14720 (14) 0.32035 (13) 0.0408 (3)
C9 0.8377 (2) 0.12518 (17) 0.38223 (16) 0.0541 (5)
C10 0.56811 (17) 0.27834 (16) 0.44744 (13) 0.0431 (4)
C11 0.80744 (19) 0.38248 (16) 0.24024 (13) 0.0449 (4)
C12 0.7732 (2) 0.53983 (16) 0.23571 (14) 0.0488 (4)
C13 0.8309 (2) 0.64508 (17) 0.09273 (15) 0.0560 (5)
C14 0.8034 (3) 0.8041 (2) 0.0821 (2) 0.0821 (7)
H2 0.17173 0.56829 0.46589 0.0601*
H3 0.18275 0.81193 0.32993 0.0796*
H4 0.27603 0.87410 0.09782 0.0878*
H5 0.35270 0.69350 0.00210 0.0817*
H6 0.34143 0.45000 0.13712 0.0630*
H7A 0.20828 0.31702 0.49831 0.0537*
H7B 0.17844 0.27896 0.38314 0.0537*
H9A 0.82125 0.06214 0.47607 0.0649*
H9B 0.97069 0.12161 0.33891 0.0649*
H10A 0.52272 0.37597 0.45308 0.0516*
H10B 0.55480 0.20912 0.53898 0.0516*
H11A 0.73375 0.37322 0.18858 0.0538*
H11B 0.93788 0.36004 0.19640 0.0538*
H12A 0.84292 0.54959 0.28969 0.0586*
H12B 0.64162 0.56520 0.27472 0.0586*
H13A 0.96161 0.61717 0.05363 0.0672*
H13B 0.75950 0.63540 0.03977 0.0672*
H14A 0.84286 0.86437 −0.01109 0.1232*
H14B 0.87606 0.81541 0.13228 0.1232*
H14C 0.67380 0.83370 0.11828 0.1232*

Atomic displacement parameters (Å2)

U11 U22 U33 U12 U13 U23
S1 0.0586 (2) 0.0591 (2) 0.0578 (2) −0.0195 (2) −0.0143 (2) −0.0221 (2)
S2 0.0483 (2) 0.0444 (2) 0.0635 (3) 0.0008 (1) −0.0102 (2) −0.0197 (2)
N1 0.0350 (5) 0.0416 (6) 0.0381 (6) −0.0065 (4) −0.0072 (4) −0.0118 (5)
N2 0.0389 (5) 0.0526 (7) 0.0390 (6) −0.0087 (5) −0.0112 (4) −0.0100 (5)
C1 0.0315 (5) 0.0469 (7) 0.0422 (7) −0.0041 (5) −0.0099 (5) −0.0150 (6)
C2 0.0469 (7) 0.0558 (9) 0.0505 (8) −0.0020 (6) −0.0139 (6) −0.0230 (7)
C3 0.0691 (10) 0.0496 (9) 0.0874 (13) 0.0017 (7) −0.0303 (9) −0.0284 (9)
C4 0.0758 (11) 0.0464 (9) 0.0843 (14) −0.0061 (8) −0.0335 (10) 0.0005 (9)
C5 0.0694 (10) 0.0707 (11) 0.0470 (9) −0.0072 (8) −0.0176 (8) −0.0018 (8)
C6 0.0538 (8) 0.0582 (9) 0.0446 (8) −0.0032 (6) −0.0131 (6) −0.0189 (7)
C7 0.0341 (6) 0.0493 (8) 0.0443 (7) −0.0075 (5) −0.0021 (5) −0.0148 (6)
C8 0.0415 (6) 0.0372 (6) 0.0365 (6) −0.0109 (5) −0.0062 (5) −0.0052 (5)
C9 0.0422 (7) 0.0555 (9) 0.0545 (8) −0.0025 (6) −0.0164 (6) −0.0076 (7)
C10 0.0434 (6) 0.0513 (8) 0.0331 (6) −0.0106 (5) −0.0087 (5) −0.0115 (6)
C11 0.0448 (6) 0.0506 (8) 0.0380 (7) −0.0121 (5) −0.0067 (5) −0.0139 (6)
C12 0.0507 (7) 0.0533 (8) 0.0435 (8) −0.0120 (6) −0.0096 (6) −0.0169 (6)
C13 0.0636 (9) 0.0532 (9) 0.0485 (8) −0.0137 (7) −0.0140 (7) −0.0116 (7)
C14 0.0893 (13) 0.0532 (10) 0.0946 (15) −0.0123 (9) −0.0219 (11) −0.0158 (10)

Geometric parameters (Å, °)

S1—C8 1.6776 (15) C3—H3 0.9300
S2—C8 1.7470 (15) C4—H4 0.9300
S2—C9 1.8479 (17) C5—H5 0.9300
N1—C7 1.4760 (19) C6—H6 0.9300
N1—C8 1.3246 (18) C7—H7A 0.9700
N1—C10 1.4899 (18) C7—H7B 0.9700
N2—C9 1.433 (2) C9—H9A 0.9700
N2—C10 1.4326 (19) C9—H9B 0.9700
N2—C11 1.4683 (18) C10—H10A 0.9700
C1—C2 1.383 (2) C10—H10B 0.9700
C1—C6 1.387 (2) C11—H11A 0.9700
C1—C7 1.505 (2) C11—H11B 0.9700
C2—C3 1.380 (3) C12—H12A 0.9700
C3—C4 1.376 (3) C12—H12B 0.9700
C4—C5 1.375 (3) C13—H13A 0.9700
C5—C6 1.378 (3) C13—H13B 0.9700
C11—C12 1.509 (2) C14—H14A 0.9600
C12—C13 1.511 (2) C14—H14B 0.9600
C13—C14 1.508 (3) C14—H14C 0.9600
C2—H2 0.9300
S1···H6 3.1400 H9A···S1iii 2.9300
S1···H7B 2.6000 H9B···S1vi 2.8800
S1···H9Bi 2.8800 H9B···H11B 2.2900
S1···H5ii 3.1600 H10A···C1 2.7100
S1···H9Aiii 2.9300 H10A···C2 2.9400
S1···H10Biii 3.1600 H10A···C12 2.7500
S2···H11A 2.9400 H10A···H7A 2.4600
N1···H11A 2.6800 H10A···H12B 2.2400
C6···C8 3.593 (2) H10B···H9A 2.2800
C8···C11 3.374 (2) H10B···S1iii 3.1600
C8···C6 3.593 (2) H11A···S2 2.9400
C11···C8 3.374 (2) H11A···N1 2.6800
C1···H12B 3.0800 H11A···C8 2.8300
C1···H10A 2.7100 H11A···H13B 2.5000
C2···H10A 2.9400 H11B···H9B 2.2900
C4···H14Bi 3.0200 H11B···H13A 2.4400
C5···H13Ai 3.0900 H11B···H13Avii 2.5700
C8···H11A 2.8300 H12A···H14B 2.5600
C10···H12B 2.8200 H12A···H2v 2.4800
C12···H10A 2.7500 H12B···C1 3.0800
C14···H4iv 3.0800 H12B···C10 2.8200
H2···H7A 2.3400 H12B···H10A 2.2400
H2···H12Av 2.4800 H12B···H14C 2.5700
H4···C14iv 3.0800 H13A···C5vi 3.0900
H4···H14Aiv 2.4500 H13A···H11B 2.4400
H5···S1ii 3.1600 H13A···H11Bvii 2.5700
H6···S1 3.1400 H13B···H11A 2.5000
H7A···H2 2.3400 H14A···H4iv 2.4500
H7A···H10A 2.4600 H14B···C4vi 3.0200
H7B···S1 2.6000 H14B···H12A 2.5600
H9A···H10B 2.2800 H14C···H12B 2.5700
C8—S2—C9 103.11 (7) N1—C7—H7B 109.00
C7—N1—C8 122.01 (12) C1—C7—H7A 109.00
C7—N1—C10 113.20 (11) C1—C7—H7B 109.00
C8—N1—C10 124.74 (12) H7A—C7—H7B 108.00
C9—N2—C10 109.50 (12) S2—C9—H9A 109.00
C9—N2—C11 113.75 (12) S2—C9—H9B 109.00
C10—N2—C11 115.24 (12) N2—C9—H9A 109.00
C2—C1—C6 119.00 (14) N2—C9—H9B 109.00
C2—C1—C7 120.70 (12) H9A—C9—H9B 108.00
C6—C1—C7 120.29 (14) N1—C10—H10A 109.00
C1—C2—C3 120.62 (15) N1—C10—H10B 109.00
C2—C3—C4 119.82 (18) N2—C10—H10A 109.00
C3—C4—C5 120.03 (18) N2—C10—H10B 109.00
C4—C5—C6 120.31 (16) H10A—C10—H10B 108.00
C1—C6—C5 120.21 (16) N2—C11—H11A 109.00
N1—C7—C1 111.22 (11) N2—C11—H11B 109.00
S1—C8—S2 112.92 (8) C12—C11—H11A 109.00
S1—C8—N1 126.10 (11) C12—C11—H11B 109.00
S2—C8—N1 120.94 (11) H11A—C11—H11B 108.00
S2—C9—N2 113.13 (11) C11—C12—H12A 109.00
N1—C10—N2 114.50 (11) C11—C12—H12B 109.00
N2—C11—C12 114.63 (12) C13—C12—H12A 109.00
C11—C12—C13 111.58 (12) C13—C12—H12B 109.00
C12—C13—C14 113.99 (14) H12A—C12—H12B 108.00
C1—C2—H2 120.00 C12—C13—H13A 109.00
C3—C2—H2 120.00 C12—C13—H13B 109.00
C2—C3—H3 120.00 C14—C13—H13A 109.00
C4—C3—H3 120.00 C14—C13—H13B 109.00
C3—C4—H4 120.00 H13A—C13—H13B 108.00
C5—C4—H4 120.00 C13—C14—H14A 109.00
C4—C5—H5 120.00 C13—C14—H14B 109.00
C6—C5—H5 120.00 C13—C14—H14C 109.00
C1—C6—H6 120.00 H14A—C14—H14B 109.00
C5—C6—H6 120.00 H14A—C14—H14C 109.00
N1—C7—H7A 109.00 H14B—C14—H14C 109.00
C9—S2—C8—S1 178.01 (8) C9—N2—C11—C12 −165.23 (13)
C9—S2—C8—N1 −0.05 (12) C10—N2—C11—C12 67.14 (17)
C8—S2—C9—N2 −29.53 (12) C6—C1—C2—C3 −1.0 (2)
C8—N1—C7—C1 −108.21 (14) C7—C1—C2—C3 177.50 (17)
C10—N1—C7—C1 74.18 (14) C2—C1—C6—C5 1.0 (2)
C7—N1—C8—S1 2.68 (19) C7—C1—C6—C5 −177.45 (17)
C7—N1—C8—S2 −179.54 (10) C2—C1—C7—N1 −114.76 (15)
C10—N1—C8—S1 −180.00 (10) C6—C1—C7—N1 63.68 (17)
C10—N1—C8—S2 −2.21 (18) C1—C2—C3—C4 0.1 (3)
C7—N1—C10—N2 −147.79 (12) C2—C3—C4—C5 0.7 (4)
C8—N1—C10—N2 34.68 (18) C3—C4—C5—C6 −0.6 (4)
C10—N2—C9—S2 62.06 (13) C4—C5—C6—C1 −0.2 (3)
C11—N2—C9—S2 −68.49 (15) N2—C11—C12—C13 177.42 (13)
C9—N2—C10—N1 −65.65 (15) C11—C12—C13—C14 −178.86 (16)
C11—N2—C10—N1 64.09 (17)

Symmetry codes: (i) x−1, y, z; (ii) −x+1, −y+1, −z; (iii) −x+1, −y, −z+1; (iv) −x+1, −y+2, −z; (v) −x+1, −y+1, −z+1; (vi) x+1, y, z; (vii) −x+2, −y+1, −z.

Hydrogen-bond geometry (Å, °)

D—H···A D—H H···A D···A D—H···A
C7—H7B···S1 0.97 2.60 3.0978 (16) 112
C12—H12B···CgA 0.97 2.96 3.7937 (19) 145

Footnotes

Supplementary data and figures for this paper are available from the IUCr electronic archives (Reference: AT2719).

References

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Associated Data

This section collects any data citations, data availability statements, or supplementary materials included in this article.

Supplementary Materials

Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536809003882/at2719sup1.cif

e-65-0o468-sup1.cif (20.2KB, cif)

Structure factors: contains datablocks I. DOI: 10.1107/S1600536809003882/at2719Isup2.hkl

e-65-0o468-Isup2.hkl (180.5KB, hkl)

Additional supplementary materials: crystallographic information; 3D view; checkCIF report


Articles from Acta Crystallographica Section E: Structure Reports Online are provided here courtesy of International Union of Crystallography

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