PMCCPMCCPMCC

Search tips
Search criteria 

Advanced

 
Logo of actaeInternational Union of Crystallographysearchopen accessarticle submissionjournal home pagethis article
 
Acta Crystallogr Sect E Struct Rep Online. 2009 October 1; 65(Pt 10): o2354.
Published online 2009 September 5. doi:  10.1107/S1600536809034618
PMCID: PMC2970426

4-Methyl-2H-1,3-oxazine-2,6(3H)-dione

Abstract

In the title compound, C5H5NO3, the planar (maximum deviation = 0.075 Å for the ring O atom) mol­ecules form N—H(...)O hydrogen bonds in a zigzag chain (C—O(...)N bond angle [similar, equals] 140°) between glide-related mol­ecules.

Related literature

For synthetic background, see: Warren et al. (1975 [triangle]); Rehberg & Glass (1995 [triangle]). For related structures, see: Copley et al. (2005 [triangle]); Parrish, Leuschner et al. (2009 [triangle]); Parrish, Tivitmahaisoon et al. 2009 [triangle]).

An external file that holds a picture, illustration, etc.
Object name is e-65-o2354-scheme1.jpg

Experimental

Crystal data

  • C5H5NO3
  • M r = 127.1
  • Monoclinic, An external file that holds a picture, illustration, etc.
Object name is e-65-o2354-efi1.jpg
  • a = 7.254 (3) Å
  • b = 6.683 (2) Å
  • c = 11.689 (5) Å
  • β = 98.11 (4)°
  • V = 561.0 (4) Å3
  • Z = 4
  • Mo Kα radiation
  • μ = 0.13 mm−1
  • T = 293 K
  • 0.46 × 0.30 × 0.10 mm

Data collection

  • Bruker R3/V diffractometer
  • Absorption correction: none
  • 1410 measured reflections
  • 1294 independent reflections
  • 910 reflections with I > 2σ(I)
  • R int = 0.012
  • 3 standard reflections every 97 reflections intensity decay: none

Refinement

  • R[F 2 > 2σ(F 2)] = 0.049
  • wR(F 2) = 0.191
  • S = 0.93
  • 1294 reflections
  • 83 parameters
  • H-atom parameters constrained
  • Δρmax = 0.23 e Å−3
  • Δρmin = −0.24 e Å−3

Data collection: XSCANS (Bruker, 1996 [triangle]); cell refinement: XSCANS (Bruker, 1996 [triangle]); data reduction: XSCANS (Bruker, 1996 [triangle]); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 [triangle]); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 [triangle]); molecular graphics: SHELXTL (Sheldrick, 2008 [triangle]); software used to prepare material for publication: SHELXTL (Sheldrick, 2008 [triangle]).

Table 1
Hydrogen-bond geometry (Å, °)

Supplementary Material

Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536809034618/pv2197sup1.cif

Structure factors: contains datablocks I. DOI: 10.1107/S1600536809034618/pv2197Isup2.hkl

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

Acknowledgments

The authors thank the National Science Foundation for grant No. ILI8951058.

supplementary crystallographic information

Comment

The synthesis of derivatives of 3-oxauracil has previously been reported (Warren et al., 1975) and an improved synthesis of the unsubstituted 3-oxauracil was reported by Rehberg & Glass (1995). The structure of the unsubstituted 3-oxauracil and its monohydrate have been reported (Copley et al., 2005). Three derivatives of 3-oxauracil (4-methyl, 4-bromo, and 4,5-dichloro) have been prepared in our laboratory in route to the synthesis of 1-aza-1,3-butadienes. In this paper, we report the crystal structure of the title compound, (I).

In the title compound (Fig. 1) only one intermolecular H-bond is formed between N3 and O6 of glide-related molecules (details are given in Table 1). Although the molecules of (I) are planar, the H-bonding chains are staggered as shown in Figure 2. The hydrogen bonding networks in (I) differs significantly from the hydrogen bonding in 4,5-dichloro (Parrish, Leuschner et al., 2009) and 4-bromo (Parrish, Tivitmahaisoon et al., 2009) derivatives.

Experimental

Citraconic anhydride (3-methylfuran-2,5-dione, 2.0 ml, 22 mmol) and trimethylsilyl azide (3.0 ml, 23 mmol) were added to 10 ml dichloromethane at 273 K and stirred under nitrogen for 4 h. Upon warming to room temperature over night, a white precipitate formed. Ethanol (2.5 ml) was added, the mixture stirred 2 additional hours, and then the solvent was removed under reduced pressure to obtain the title compound; yield: 1.7 g (13 mmol, 59%). Crystals of the title compound were grown from a solution of acetone at room temperature by slow evaporation.

Refinement

Hydrogen positions were calculated and refined using a riding model using the following C—H distances: methyl 0.96 Å, methylene 0.93 Å, and N—H 0.88 Å with Uiso(H) = 1.2Ueq(C5/N3) and 1.5Ueq(C7).

Figures

Fig. 1.
The molecular structure of the title compound, with atom labels and 50% probability displacement ellipsoids for non-H atoms.
Fig. 2.
The packing of the title compound viewed down the a axis; intermolecular hydrogen bonds have been represented by dashed lines.

Crystal data

C5H5NO3F(000) = 264
Mr = 127.1Dx = 1.505 Mg m3Dm = 1.46 Mg m3Dm measured by floatation in bromoform/hexane solution
Monoclinic, P21/nMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ynCell parameters from 20 reflections
a = 7.254 (3) Åθ = 10–12.5°
b = 6.683 (2) ŵ = 0.13 mm1
c = 11.689 (5) ÅT = 293 K
β = 98.11 (4)°Plates, colorless
V = 561.0 (4) Å30.46 × 0.30 × 0.10 mm
Z = 4

Data collection

Bruker R3/V diffractometerRint = 0.012
Radiation source: fine-focus sealed tubeθmax = 27.6°, θmin = 3.1°
graphiteh = 0→9
θ – 2θ scansk = 0→8
1410 measured reflectionsl = −15→15
1294 independent reflections3 standard reflections every 97 reflections
910 reflections with I > 2σ(I) intensity decay: none

Refinement

Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.049Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.191H-atom parameters constrained
S = 0.93w = 1/[σ2(Fo2) + (0.1301P)2 + 0.1905P] where P = (Fo2 + 2Fc2)/3
1294 reflections(Δ/σ)max = 0.005
83 parametersΔρmax = 0.23 e Å3
0 restraintsΔρmin = −0.24 e Å3

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)

xyzUiso*/Ueq
O10.6042 (2)0.1383 (2)0.68042 (13)0.0466 (5)
C20.4998 (3)0.2078 (3)0.58306 (19)0.0422 (5)
O20.3337 (2)0.2161 (3)0.57888 (19)0.0694 (6)
N30.5939 (2)0.2571 (3)0.49490 (14)0.0406 (5)
H30.53050.29670.43120.049*
C40.7833 (3)0.2477 (3)0.50089 (18)0.0392 (5)
C50.8847 (3)0.1896 (3)0.59971 (19)0.0430 (5)
H51.01370.18460.60480.052*
C60.7988 (3)0.1357 (3)0.69668 (18)0.0435 (5)
O60.8682 (3)0.0868 (3)0.79242 (15)0.0695 (7)
C70.8619 (4)0.3002 (5)0.3938 (2)0.0630 (8)
H7A0.99550.29790.40930.095*
H7B0.82100.43170.36870.095*
H7C0.82010.20500.33430.095*

Atomic displacement parameters (Å2)

U11U22U33U12U13U23
O10.0448 (9)0.0555 (10)0.0417 (8)−0.0028 (7)0.0137 (6)0.0020 (7)
C20.0329 (10)0.0455 (12)0.0490 (11)0.0003 (8)0.0086 (8)−0.0068 (9)
O20.0324 (9)0.0847 (14)0.0936 (15)−0.0020 (9)0.0174 (9)−0.0026 (11)
N30.0342 (9)0.0511 (10)0.0350 (9)0.0041 (7)0.0003 (7)0.0010 (7)
C40.0374 (10)0.0384 (10)0.0445 (11)0.0029 (8)0.0152 (8)−0.0025 (9)
C50.0294 (9)0.0458 (12)0.0534 (12)0.0012 (9)0.0049 (8)−0.0021 (10)
C60.0447 (11)0.0395 (11)0.0435 (11)−0.0024 (9)−0.0038 (9)−0.0025 (9)
O60.0831 (14)0.0687 (13)0.0494 (10)−0.0096 (10)−0.0167 (9)0.0110 (9)
C70.0651 (16)0.0733 (18)0.0573 (14)0.0053 (13)0.0313 (12)0.0133 (13)

Geometric parameters (Å, °)

O1—C21.357 (3)C4—C71.489 (3)
O1—C61.398 (3)C5—C61.415 (3)
C2—O21.200 (3)C5—H50.9300
C2—N31.354 (3)C6—O61.206 (3)
N3—C41.368 (3)C7—H7A0.9600
N3—H30.8600C7—H7B0.9600
C4—C51.337 (3)C7—H7C0.9600
C2—O1—C6123.50 (17)C4—C5—H5119.5
O2—C2—N3124.6 (2)C6—C5—H5119.5
O2—C2—O1119.2 (2)O6—C6—O1114.3 (2)
N3—C2—O1116.10 (18)O6—C6—C5129.7 (2)
C2—N3—C4124.08 (18)O1—C6—C5115.99 (18)
C2—N3—H3118.0C4—C7—H7A109.5
C4—N3—H3118.0C4—C7—H7B109.5
C5—C4—N3118.95 (18)H7A—C7—H7B109.5
C5—C4—C7124.5 (2)C4—C7—H7C109.5
N3—C4—C7116.6 (2)H7A—C7—H7C109.5
C4—C5—C6121.03 (19)H7B—C7—H7C109.5
C6—O1—C2—O2−175.5 (2)N3—C4—C5—C60.9 (3)
C6—O1—C2—N36.7 (3)C7—C4—C5—C6−177.8 (2)
O2—C2—N3—C4179.7 (2)C2—O1—C6—O6173.2 (2)
O1—C2—N3—C4−2.6 (3)C2—O1—C6—C5−6.9 (3)
C2—N3—C4—C5−1.1 (3)C4—C5—C6—O6−177.3 (2)
C2—N3—C4—C7177.7 (2)C4—C5—C6—O12.8 (3)

Hydrogen-bond geometry (Å, °)

D—H···AD—HH···AD···AD—H···A
N3—H3···O6i0.862.022.877 (3)173

Symmetry codes: (i) x−1/2, −y+1/2, z−1/2.

Footnotes

Supplementary data and figures for this paper are available from the IUCr electronic archives (Reference: PV2197).

References

  • Bruker (1996). XSCANS Bruker AXS Inc., Madison, Wisconsin, USA.
  • Copley, R. C. B., Deprez, L. S., Lewis, T. C. & Price, S. L. (2005). CrystEngComm, 7, 421–428.
  • Parrish, D., Glass, B., Rehberg, G. M. & Kastner, M. E. (2009). Acta Cryst. E65, o2356. [PMC free article] [PubMed]
  • Parrish, D., Tivitmahaisoon, P., Rehberg, G. M. & Kastner, M. E. (2009). Acta Cryst E65, o2355. [PMC free article] [PubMed]
  • Rehberg, G. M. & Glass, B. M. (1995). Org. Prep. Proced. Int 27, 651–652.
  • Sheldrick, G. M. (2008). Acta Cryst. A64, 112–122. [PubMed]
  • Warren, J. D., MacMillan, J. H. & Washburne, S. S. (1975). J. Org. Chem.40, 743–746.

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