Skip to main content
Acta Crystallographica Section E: Structure Reports Online logoLink to Acta Crystallographica Section E: Structure Reports Online
. 2011 Sep 30;67(Pt 10):o2771. doi: 10.1107/S1600536811038785

8-Thia-1,6-diaza­bicyclo­[4.3.0]nonane-7,9-dione

Bin-bin Xi a, Lu Shi a, Hai Huang a, Qin Wang a, Hong-Jun Zhu b,*
PMCID: PMC3201436  PMID: 22065138

Abstract

There are two independent mol­ecules, A and B, in the asymmetric unit of the title compound, C6H8N2O2S. In the crystal, pairs of inter­molecular S⋯O contacts [3.286 (1) Å] link the B mol­ecules into inversion dimers.

Related literature

For applications of the title compound, see: Yamaguchi et al. (1989). For the synthesis, see: Zhu et al. (2011). For bond-length data, see: Allen et al. (1987). For a review of carbon­yl–carbonyl inter­actions, see: Allen et al. (1998).graphic file with name e-67-o2771-scheme1.jpg

Experimental

Crystal data

  • C6H8N2O2S

  • M r = 172.20

  • Triclinic, Inline graphic

  • a = 7.8400 (16) Å

  • b = 10.464 (2) Å

  • c = 10.514 (2) Å

  • α = 63.84 (3)°

  • β = 79.62 (3)°

  • γ = 89.42 (3)°

  • V = 759.2 (3) Å3

  • Z = 4

  • Mo Kα radiation

  • μ = 0.37 mm−1

  • T = 293 K

  • 0.30 × 0.20 × 0.10 mm

Data collection

  • Enraf–Nonius CAD-4 diffractometer

  • Absorption correction: ψ scan (North et al., 1968) T min = 0.896, T max = 0.964

  • 3018 measured reflections

  • 2795 independent reflections

  • 2092 reflections with I > 2σ(I)

  • R int = 0.041

  • 3 standard reflections every 200 reflections intensity decay: 1%

Refinement

  • R[F 2 > 2σ(F 2)] = 0.044

  • wR(F 2) = 0.125

  • S = 1.00

  • 2795 reflections

  • 200 parameters

  • H-atom parameters constrained

  • Δρmax = 0.22 e Å−3

  • Δρmin = −0.32 e Å−3

Data collection: CAD-4 EXPRESS (Enraf–Nonius, 1994); cell refinement: CAD-4 EXPRESS; data reduction: XCAD4 (Harms & Wocadlo,1995); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: SHELXTL (Sheldrick, 2008); software used to prepare material for publication: SHELXTL.

Supplementary Material

Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536811038785/lx2196sup1.cif

e-67-o2771-sup1.cif (23.9KB, cif)

Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811038785/lx2196Isup2.hkl

e-67-o2771-Isup2.hkl (137.2KB, hkl)

Supplementary material file. DOI: 10.1107/S1600536811038785/lx2196Isup3.cml

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

Acknowledgments

The authors thank the Center of Testing and Analysis, Nanjing University, for support.

supplementary crystallographic information

Comment

The title compound, 8-thia-1,6-diazabicyclo[4.3.0]nonane-7,9-dione, is an important intermediate for a kind of manufacturing agrochemical, especially for Fluthiacet-methyl as a super-effective, wide-spectral and safe herbicide (Yamaguchi et al., 1989). We report herein the crystal structure of the title compound.

The asymmetric unit of the title compound is shown in Fig. 1 and there are two independent unique molecules [labeled A & B]. The bond lengths and angles are within normal ranges (Allen et al., 1987). The crystal packing (Fig. 2) is stabilized by an intermolecular S···O interaction between the sulfur and the O atom of the carbonyl group interpreted as similar to type-II carbonyl–carbonyl interaction (Allen et al., 1998), with S1···O2i distance of 3.286 (1) Å.

Experimental

The title compound was prepared according to reported in literature (Zhu et al., 2011). Single crystals suitable for X-ray diffraction were prepared by slow evaporation of a solution of the title compound in ethanol at room temperature for ca. 6 d.

Refinement

All H atoms were positioned geometrically and refined using a riding model, with C—H = 0.95 Å and Uiso(H) =1.5Ueq(C).

Figures

Fig. 1.

Fig. 1.

The molecular structure of the title compound with the atom numbering scheme. Displacement ellipsoids are drawn at the 50% probability level. H atoms are presented as small spheres of arbitrary radius.

Fig. 2.

Fig. 2.

A view of the S···O interactions (dotted lines) in the crystal structure of the title compound. [Symmetry codes: (i) - x, - y + 2, - z.]

Crystal data

C6H8N2O2S Z = 4
Mr = 172.20 F(000) = 360
Triclinic, P1 Dx = 1.507 Mg m3
Hall symbol: -P 1 Mo Kα radiation, λ = 0.71073 Å
a = 7.8400 (16) Å Cell parameters from 25 reflections
b = 10.464 (2) Å θ = 10–13°
c = 10.514 (2) Å µ = 0.37 mm1
α = 63.84 (3)° T = 293 K
β = 79.62 (3)° Block, colourless
γ = 89.42 (3)° 0.30 × 0.20 × 0.10 mm
V = 759.2 (3) Å3

Data collection

Enraf–Nonius CAD-4 diffractometer 2092 reflections with I > 2σ(I)
Radiation source: fine-focus sealed tube Rint = 0.041
graphite θmax = 25.4°, θmin = 2.2°
ω/2θ scans h = 0→9
Absorption correction: ψ scan (North et al., 1968) k = −12→12
Tmin = 0.896, Tmax = 0.964 l = −12→12
3018 measured reflections 3 standard reflections every 200 reflections
2795 independent reflections intensity decay: 1%

Refinement

Refinement on F2 Secondary atom site location: difference Fourier map
Least-squares matrix: full Hydrogen site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.044 H-atom parameters constrained
wR(F2) = 0.125 w = 1/[σ2(Fo2) + (0.077P)2] where P = (Fo2 + 2Fc2)/3
S = 1.00 (Δ/σ)max < 0.001
2795 reflections Δρmax = 0.22 e Å3
200 parameters Δρmin = −0.32 e Å3
0 restraints Extinction correction: SHELXL, Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4
Primary atom site location: structure-invariant direct methods Extinction coefficient: 0.327 (16)

Special details

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.

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

x y z Uiso*/Ueq
S1 −0.09731 (11) 0.82576 (8) 0.04086 (8) 0.0598 (3)
O1 −0.3185 (3) 0.5944 (3) 0.1791 (3) 0.0737 (7)
O2 0.2479 (3) 0.8734 (2) −0.0219 (2) 0.0632 (6)
N1 −0.0292 (2) 0.5625 (2) 0.1507 (2) 0.0416 (5)
N2 0.1318 (3) 0.6432 (2) 0.1083 (2) 0.0411 (5)
C1 0.2837 (3) 0.5721 (3) 0.0768 (3) 0.0464 (6)
H1A 0.3892 0.6300 0.0591 0.056*
H1B 0.2803 0.5604 −0.0092 0.056*
C2 0.2842 (4) 0.4278 (3) 0.2034 (3) 0.0547 (7)
H2A 0.3027 0.4404 0.2860 0.066*
H2B 0.3789 0.3771 0.1791 0.066*
C3 0.1134 (4) 0.3408 (3) 0.2418 (3) 0.0529 (7)
H3A 0.1002 0.3205 0.1623 0.063*
H3B 0.1137 0.2505 0.3261 0.063*
C4 −0.0370 (4) 0.4199 (3) 0.2726 (3) 0.0491 (7)
H4A −0.1456 0.3669 0.2878 0.059*
H4B −0.0326 0.4290 0.3599 0.059*
C5 −0.1691 (3) 0.6421 (3) 0.1356 (3) 0.0497 (7)
C6 0.1243 (4) 0.7859 (3) 0.0365 (3) 0.0462 (6)
S2 0.16047 (9) 0.00770 (8) 0.62686 (8) 0.0517 (3)
O3 0.3930 (3) −0.1856 (2) 0.6988 (2) 0.0625 (6)
O4 0.1494 (2) 0.2796 (2) 0.5788 (2) 0.0585 (5)
N3 0.4698 (2) 0.0396 (2) 0.6615 (2) 0.0396 (5)
N4 0.3934 (3) 0.1675 (2) 0.6431 (2) 0.0379 (5)
C7 0.5149 (3) 0.2948 (3) 0.5815 (3) 0.0462 (6)
H7A 0.4534 0.3749 0.5837 0.055*
H7B 0.5648 0.3187 0.4817 0.055*
C8 0.6568 (4) 0.2672 (3) 0.6669 (3) 0.0567 (8)
H8A 0.6083 0.2567 0.7629 0.068*
H8B 0.7430 0.3483 0.6203 0.068*
C9 0.7431 (3) 0.1341 (3) 0.6786 (3) 0.0541 (7)
H9A 0.8298 0.1158 0.7384 0.065*
H9B 0.8015 0.1481 0.5833 0.065*
C10 0.6102 (3) 0.0070 (3) 0.7438 (3) 0.0502 (7)
H10A 0.6655 −0.0756 0.7418 0.060*
H10B 0.5628 −0.0153 0.8437 0.060*
C11 0.3614 (3) −0.0634 (3) 0.6686 (3) 0.0433 (6)
C12 0.2314 (3) 0.1752 (3) 0.6121 (3) 0.0412 (6)

Atomic displacement parameters (Å2)

U11 U22 U33 U12 U13 U23
S1 0.0698 (5) 0.0513 (5) 0.0626 (5) 0.0262 (4) −0.0203 (4) −0.0268 (4)
O1 0.0382 (12) 0.0922 (17) 0.0976 (17) 0.0078 (11) −0.0077 (11) −0.0508 (14)
O2 0.0749 (14) 0.0403 (11) 0.0593 (13) −0.0102 (10) 0.0012 (11) −0.0138 (10)
N1 0.0357 (11) 0.0393 (11) 0.0448 (12) 0.0011 (9) −0.0052 (9) −0.0153 (10)
N2 0.0369 (11) 0.0349 (11) 0.0453 (12) 0.0006 (9) −0.0038 (9) −0.0139 (9)
C1 0.0375 (14) 0.0472 (15) 0.0502 (15) 0.0045 (11) 0.0008 (11) −0.0213 (13)
C2 0.0508 (17) 0.0486 (16) 0.0617 (18) 0.0155 (13) −0.0147 (14) −0.0209 (14)
C3 0.073 (2) 0.0344 (14) 0.0467 (15) 0.0053 (13) −0.0151 (14) −0.0130 (12)
C4 0.0545 (16) 0.0431 (15) 0.0406 (14) −0.0101 (12) −0.0044 (12) −0.0120 (12)
C5 0.0418 (16) 0.0638 (18) 0.0531 (16) 0.0122 (13) −0.0109 (13) −0.0343 (15)
C6 0.0585 (17) 0.0418 (15) 0.0362 (13) 0.0039 (13) −0.0048 (12) −0.0172 (12)
S2 0.0443 (4) 0.0511 (4) 0.0589 (5) −0.0031 (3) −0.0175 (3) −0.0208 (3)
O3 0.0769 (15) 0.0407 (11) 0.0712 (14) 0.0081 (10) −0.0188 (11) −0.0247 (10)
O4 0.0494 (11) 0.0536 (12) 0.0682 (13) 0.0176 (10) −0.0212 (10) −0.0200 (10)
N3 0.0358 (11) 0.0354 (11) 0.0451 (12) 0.0058 (9) −0.0080 (9) −0.0159 (9)
N4 0.0328 (10) 0.0335 (11) 0.0445 (12) 0.0028 (8) −0.0076 (9) −0.0150 (9)
C7 0.0446 (15) 0.0356 (13) 0.0543 (16) −0.0040 (11) −0.0011 (12) −0.0195 (12)
C8 0.0418 (15) 0.0667 (19) 0.0708 (19) −0.0067 (14) −0.0050 (14) −0.0409 (16)
C9 0.0312 (13) 0.076 (2) 0.0632 (18) 0.0066 (13) −0.0108 (13) −0.0377 (16)
C10 0.0381 (14) 0.0576 (16) 0.0520 (16) 0.0119 (12) −0.0132 (12) −0.0204 (14)
C11 0.0467 (15) 0.0393 (15) 0.0413 (14) 0.0016 (12) −0.0056 (11) −0.0167 (11)
C12 0.0386 (13) 0.0453 (14) 0.0359 (13) 0.0049 (12) −0.0095 (11) −0.0138 (11)

Geometric parameters (Å, °)

S1—C5 1.771 (3) S2—C12 1.776 (3)
S1—C6 1.780 (3) S2—C11 1.779 (3)
O1—C5 1.203 (3) O3—C11 1.208 (3)
O2—C6 1.209 (3) O4—C12 1.208 (3)
N1—C5 1.360 (3) N3—C11 1.347 (3)
N1—N2 1.411 (3) N3—N4 1.409 (3)
N1—C4 1.470 (3) N3—C10 1.467 (3)
N2—C6 1.351 (3) N4—C12 1.360 (3)
N2—C1 1.463 (3) N4—C7 1.464 (3)
C1—C2 1.510 (4) C7—C8 1.501 (4)
C1—H1A 0.9700 C7—H7A 0.9700
C1—H1B 0.9700 C7—H7B 0.9700
C2—C3 1.514 (4) C8—C9 1.508 (4)
C2—H2A 0.9700 C8—H8A 0.9700
C2—H2B 0.9700 C8—H8B 0.9700
C3—C4 1.503 (4) C9—C10 1.514 (4)
C3—H3A 0.9700 C9—H9A 0.9700
C3—H3B 0.9700 C9—H9B 0.9700
C4—H4A 0.9700 C10—H10A 0.9700
C4—H4B 0.9700 C10—H10B 0.9700
C5—S1—C6 91.50 (13) C12—S2—C11 91.50 (12)
C5—N1—N2 114.0 (2) C11—N3—N4 114.76 (19)
C5—N1—C4 121.3 (2) C11—N3—C10 122.2 (2)
N2—N1—C4 114.5 (2) N4—N3—C10 114.6 (2)
C6—N2—N1 114.8 (2) C12—N4—N3 114.5 (2)
C6—N2—C1 121.8 (2) C12—N4—C7 121.1 (2)
N1—N2—C1 115.11 (19) N3—N4—C7 115.35 (19)
N2—C1—C2 109.5 (2) N4—C7—C8 109.7 (2)
N2—C1—H1A 109.8 N4—C7—H7A 109.7
C2—C1—H1A 109.8 C8—C7—H7A 109.7
N2—C1—H1B 109.8 N4—C7—H7B 109.7
C2—C1—H1B 109.8 C8—C7—H7B 109.7
H1A—C1—H1B 108.2 H7A—C7—H7B 108.2
C1—C2—C3 110.6 (2) C7—C8—C9 111.1 (2)
C1—C2—H2A 109.5 C7—C8—H8A 109.4
C3—C2—H2A 109.5 C9—C8—H8A 109.4
C1—C2—H2B 109.5 C7—C8—H8B 109.4
C3—C2—H2B 109.5 C9—C8—H8B 109.4
H2A—C2—H2B 108.1 H8A—C8—H8B 108.0
C4—C3—C2 110.8 (2) C8—C9—C10 110.7 (2)
C4—C3—H3A 109.5 C8—C9—H9A 109.5
C2—C3—H3A 109.5 C10—C9—H9A 109.5
C4—C3—H3B 109.5 C8—C9—H9B 109.5
C2—C3—H3B 109.5 C10—C9—H9B 109.5
H3A—C3—H3B 108.1 H9A—C9—H9B 108.1
N1—C4—C3 109.9 (2) N3—C10—C9 109.7 (2)
N1—C4—H4A 109.7 N3—C10—H10A 109.7
C3—C4—H4A 109.7 C9—C10—H10A 109.7
N1—C4—H4B 109.7 N3—C10—H10B 109.7
C3—C4—H4B 109.7 C9—C10—H10B 109.7
H4A—C4—H4B 108.2 H10A—C10—H10B 108.2
O1—C5—N1 125.0 (3) O3—C11—N3 126.2 (3)
O1—C5—S1 125.5 (2) O3—C11—S2 124.5 (2)
N1—C5—S1 109.5 (2) N3—C11—S2 109.34 (18)
O2—C6—N2 125.7 (3) O4—C12—N4 125.5 (2)
O2—C6—S1 125.1 (2) O4—C12—S2 125.4 (2)
N2—C6—S1 109.2 (2) N4—C12—S2 109.10 (18)
C5—N1—N2—C6 −11.3 (3) C11—N3—N4—C12 −10.1 (3)
C4—N1—N2—C6 −157.2 (2) C10—N3—N4—C12 −159.0 (2)
C5—N1—N2—C1 −160.4 (2) C11—N3—N4—C7 −157.8 (2)
C4—N1—N2—C1 53.6 (3) C10—N3—N4—C7 53.3 (3)
C6—N2—C1—C2 160.1 (2) C12—N4—C7—C8 162.2 (2)
N1—N2—C1—C2 −53.2 (3) N3—N4—C7—C8 −52.4 (3)
N2—C1—C2—C3 54.1 (3) N4—C7—C8—C9 53.6 (3)
C1—C2—C3—C4 −56.3 (3) C7—C8—C9—C10 −56.1 (3)
C5—N1—C4—C3 164.3 (2) C11—N3—C10—C9 161.2 (2)
N2—N1—C4—C3 −52.4 (3) N4—N3—C10—C9 −52.4 (3)
C2—C3—C4—N1 53.8 (3) C8—C9—C10—N3 53.8 (3)
N2—N1—C5—O1 −171.7 (3) N4—N3—C11—O3 −171.8 (2)
C4—N1—C5—O1 −28.3 (4) C10—N3—C11—O3 −25.6 (4)
N2—N1—C5—S1 8.8 (3) N4—N3—C11—S2 7.9 (3)
C4—N1—C5—S1 152.26 (19) C10—N3—C11—S2 154.20 (19)
C6—S1—C5—O1 176.8 (3) C12—S2—C11—O3 176.4 (2)
C6—S1—C5—N1 −3.76 (19) C12—S2—C11—N3 −3.33 (19)
N1—N2—C6—O2 −172.2 (2) N3—N4—C12—O4 −172.5 (2)
C1—N2—C6—O2 −25.3 (4) C7—N4—C12—O4 −26.9 (4)
N1—N2—C6—S1 7.8 (3) N3—N4—C12—S2 6.9 (3)
C1—N2—C6—S1 154.63 (19) C7—N4—C12—S2 152.55 (18)
C5—S1—C6—O2 177.7 (3) C11—S2—C12—O4 177.4 (2)
C5—S1—C6—N2 −2.26 (19) C11—S2—C12—N4 −2.03 (19)

Footnotes

Supplementary data and figures for this paper are available from the IUCr electronic archives (Reference: LX2196).

References

  1. Allen, F. H., Baalham, C. A., Lommerse, J. P. M. & Raithby, P. R. (1998). Acta Cryst. B54, 320–329.
  2. Allen, F. H., Kennard, O., Watson, D. G., Brammer, L., Orpen, A. G. & Taylor, R. (1987). J. Chem. Soc. Perkin Trans. 2, pp. S1–19.
  3. Enraf–Nonius (1994). CAD-4 EXPRESS Enraf–Nonius, Delft, The Netherlands.
  4. Harms, K. & Wocadlo, S. (1995). XCAD4 University of Marburg, Germany.
  5. North, A. C. T., Phillips, D. C. & Mathews, F. S. (1968). Acta Cryst. A24, 351–359.
  6. Sheldrick, G. M. (2008). Acta Cryst. A64, 112–122. [DOI] [PubMed]
  7. Yamaguchi, M., Suzuki, C., Matsunari, K., Miyazawa, T. & Nakamura, Y. (1989). EP Patent 0312064A2.
  8. Zhu, H. J., Xi, B. B., Feng, M. L., Wang, K., Li, Y. F., Shi, L. & Chen, C. (2011). CN Patent Appl. CN 201110091918.8.

Associated Data

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

Supplementary Materials

Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536811038785/lx2196sup1.cif

e-67-o2771-sup1.cif (23.9KB, cif)

Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811038785/lx2196Isup2.hkl

e-67-o2771-Isup2.hkl (137.2KB, hkl)

Supplementary material file. DOI: 10.1107/S1600536811038785/lx2196Isup3.cml

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

RESOURCES