organic compounds
3-(p-Anisyl)sydnone
aX-ray Crystallography Unit, School of Physics, Universiti Sains Malaysia, 11800 USM, Penang, Malaysia, and bDepartment of Studies in Chemistry, Mangalore University, Mangalagangotri, Mangalore 574 199, India
*Correspondence e-mail: hkfun@usm.my
In the title sydnone compound [systematic name: 3-(4-methoxyphenyl)-1,2,3-oxadiazol-3-ium-5-olate], C9H8N2O3, the essentially planar oxadiazole ring [maximum deviation = 0.005 (1) Å] is inclined at a dihedral angle of 30.32 (8)° with respect to the benzene ring. In the crystal, adjacent molecules are interconnected by intermolecular C—H⋯O hydrogen bonds into sheets lying parallel to (100). Weak intermolecular π–π interactions [centroid–centroid distance = 3.5812 (8) Å] further stabilize the crystal packing.
Related literature
For general background to and applications of the title sydnone compound, see: Hegde et al. (2008); Kalluraya & Rahiman (1997); Kalluraya et al. (2002); Rai et al. (2008). For closely related sydnone structures, see: Goh et al. (2010a,b,c). For the stability of the temperature controller used in the data collection, see: Cosier & Glazer (1986).
Experimental
Crystal data
|
Refinement
|
Data collection: APEX2 (Bruker, 2009); cell SAINT (Bruker, 2009); data reduction: SAINT (Bruker, 2009); program(s) used to solve structure: SHELXTL (Sheldrick, 2008); program(s) used to refine structure: SHELXTL; molecular graphics: SHELXTL; software used to prepare material for publication: SHELXTL and PLATON (Spek, 2009).
Supporting information
https://doi.org/10.1107/S1600536810047422/rz2524sup1.cif
contains datablocks global, I. DOI:Structure factors: contains datablock I. DOI: https://doi.org/10.1107/S1600536810047422/rz2524Isup2.hkl
N-Nitroso-p-methoxyanilinoacetic acid (0.01 mol) was heated with acetic acid anhydride (0.5 mol) on a water bath for 2–3 h. The reaction mixture was kept aside at room temperature for overnight. It was then poured into ice-cold water. The obtained solid was dried and crystallized from benzene. Single crystals suitable for X-ray analysis were obtained from ethanol by slow evaporation.
All H atoms were located from difference Fourier map and allowed to refine freely with range of C—H = 0.95 (2) – 1.00 (2) Å. In the absence of significant
1266 Friedel pairs were merged in the final refinement.Sydnones constitute a well-defined class of
consisting of 1,2,3-oxadiazole ring system. The study of still remains a field of interest because of their electronic structure and also because of the varied types of biological activity displayed by some of them (Rai et al., 2008). Sydnone derivatives were found to exhibit promising anti-microbial properties (Hegde et al., 2008). are synthesized by the cyclodehydration of N-nitroso-N-substituted amino acids using acetic anhydride. The unsubstituted in the 4-position readily undergo typical electrophilic namely formylation (Kalluraya & Rahiman, 1997) and acetylation (Kalluraya et al., 2002).In the title sydnone compound (Fig. 1), the 1,2,3-oxadiazole ring with atom sequence C7/C8/O1/N1/N2 is essentially planar, with a maximum deviation of 0.005 (1) Å at atom O1. The whole molecule is not planar, as indicated by the dihedral angle formed between the 1,2,3-oxadiazole and phenyl rings of 30.32 (8)°. Comparing with those previously reported structures with substitution at the 4-position of the sydnone moiety (Goh et al., 2010a,c), the exocyclic C8—O2 bond length [1.2174 (8) Å] is longer than the respective values observed [1.193 (3) and 1.2089 (9) Å]. All other geometric parameters agree well with those observed in closely related sydnone structures (Goh et al., 2010a,b,c).
In the crystal packing, intermolecular C1—H1A···O2 and C7—H7A···O3 hydrogen bonds (Table 1) link adjacent molecules into two-dimensional sheets lying parallel to the bc plane (Fig. 2). The crystal packing is further stabilized by weak intermolecular π–π interactions [Cg1···Cg2 = 3.5812 (8) Å; symmetry code: x-1/2, -y+3/2, -z+1] involving the 1,2,3-oxadiazole and phenyl rings.
For general background to and applications of the title sydnone compound, see: Hegde et al. (2008); Kalluraya & Rahiman (1997); Kalluraya et al. (2002); Rai et al. (2008). For closely related sydnone structures, see: Goh et al. (2010a,b,c). For the stability of the temperature controller used in the data collection, see: Cosier & Glazer (1986).
Data collection: APEX2 (Bruker, 2009); cell
SAINT (Bruker, 2009); data reduction: SAINT (Bruker, 2009); program(s) used to solve structure: SHELXTL (Sheldrick, 2008); program(s) used to refine structure: SHELXTL (Sheldrick, 2008); molecular graphics: SHELXTL (Sheldrick, 2008); software used to prepare material for publication: SHELXTL (Sheldrick, 2008) and PLATON (Spek, 2009).C9H8N2O3 | F(000) = 400 |
Mr = 192.17 | Dx = 1.524 Mg m−3 |
Orthorhombic, P212121 | Mo Kα radiation, λ = 0.71073 Å |
Hall symbol: P 2ac 2ab | Cell parameters from 2851 reflections |
a = 7.0505 (2) Å | θ = 3.4–32.4° |
b = 9.8220 (3) Å | µ = 0.12 mm−1 |
c = 12.0934 (3) Å | T = 100 K |
V = 837.47 (4) Å3 | Needle, yellow |
Z = 4 | 0.56 × 0.15 × 0.14 mm |
Bruker SMART APEXII CCD area-detector diffractometer | 1760 independent reflections |
Radiation source: fine-focus sealed tube | 1577 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.031 |
φ and ω scans | θmax = 32.7°, θmin = 2.7° |
Absorption correction: multi-scan (SADABS; Bruker, 2009) | h = −10→10 |
Tmin = 0.938, Tmax = 0.984 | k = −14→14 |
7384 measured reflections | l = −18→18 |
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)] = 0.037 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.100 | All H-atom parameters refined |
S = 1.06 | w = 1/[σ2(Fo2) + (0.0608P)2 + 0.0718P] where P = (Fo2 + 2Fc2)/3 |
1760 reflections | (Δ/σ)max < 0.001 |
159 parameters | Δρmax = 0.32 e Å−3 |
0 restraints | Δρmin = −0.26 e Å−3 |
C9H8N2O3 | V = 837.47 (4) Å3 |
Mr = 192.17 | Z = 4 |
Orthorhombic, P212121 | Mo Kα radiation |
a = 7.0505 (2) Å | µ = 0.12 mm−1 |
b = 9.8220 (3) Å | T = 100 K |
c = 12.0934 (3) Å | 0.56 × 0.15 × 0.14 mm |
Bruker SMART APEXII CCD area-detector diffractometer | 1760 independent reflections |
Absorption correction: multi-scan (SADABS; Bruker, 2009) | 1577 reflections with I > 2σ(I) |
Tmin = 0.938, Tmax = 0.984 | Rint = 0.031 |
7384 measured reflections |
R[F2 > 2σ(F2)] = 0.037 | 0 restraints |
wR(F2) = 0.100 | All H-atom parameters refined |
S = 1.06 | Δρmax = 0.32 e Å−3 |
1760 reflections | Δρmin = −0.26 e Å−3 |
159 parameters |
Experimental. The crystal was placed in the cold stream of an Oxford Cryosystems Cobra open-flow nitrogen cryostat (Cosier & Glazer, 1986) operating at 100.0 (1)K. |
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell esds are taken into account individually in the estimation of esds in distances, angles and torsion angles; correlations between esds in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell esds is used for estimating esds 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 > 2sigma(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. |
x | y | z | Uiso*/Ueq | ||
O1 | 0.08268 (18) | 0.95246 (11) | 0.72517 (9) | 0.0204 (2) | |
O2 | 0.15734 (19) | 0.83477 (13) | 0.88211 (9) | 0.0252 (3) | |
O3 | 0.12932 (18) | 0.57288 (10) | 0.18145 (8) | 0.0199 (2) | |
N1 | 0.0695 (2) | 0.92968 (13) | 0.61277 (11) | 0.0199 (3) | |
N2 | 0.11891 (19) | 0.80122 (12) | 0.60181 (10) | 0.0152 (2) | |
C1 | 0.1632 (2) | 0.82919 (14) | 0.40336 (11) | 0.0157 (2) | |
C2 | 0.1665 (2) | 0.77417 (15) | 0.29712 (11) | 0.0158 (3) | |
C3 | 0.1284 (2) | 0.63583 (15) | 0.28173 (12) | 0.0160 (3) | |
C4 | 0.0868 (2) | 0.55302 (15) | 0.37253 (13) | 0.0179 (3) | |
C5 | 0.0829 (2) | 0.60641 (15) | 0.47811 (12) | 0.0165 (3) | |
C6 | 0.1211 (2) | 0.74504 (16) | 0.49222 (12) | 0.0145 (2) | |
C7 | 0.1622 (2) | 0.73661 (15) | 0.69641 (12) | 0.0173 (3) | |
C8 | 0.1394 (2) | 0.83234 (16) | 0.78201 (12) | 0.0186 (3) | |
C9 | 0.1403 (3) | 0.65840 (16) | 0.08473 (12) | 0.0205 (3) | |
H1A | 0.192 (3) | 0.928 (2) | 0.4147 (15) | 0.019 (5)* | |
H2A | 0.194 (3) | 0.831 (2) | 0.2340 (16) | 0.024 (5)* | |
H4A | 0.070 (3) | 0.457 (2) | 0.3623 (16) | 0.025 (5)* | |
H5A | 0.047 (3) | 0.5524 (19) | 0.5411 (15) | 0.015 (5)* | |
H7A | 0.203 (3) | 0.641 (2) | 0.6995 (17) | 0.026 (5)* | |
H9A | 0.124 (3) | 0.603 (2) | 0.0190 (16) | 0.020 (5)* | |
H9B | 0.040 (3) | 0.723 (2) | 0.0852 (16) | 0.023 (5)* | |
H9C | 0.262 (4) | 0.708 (3) | 0.0800 (19) | 0.041 (7)* |
U11 | U22 | U33 | U12 | U13 | U23 | |
O1 | 0.0255 (5) | 0.0180 (5) | 0.0179 (5) | 0.0014 (5) | 0.0003 (5) | −0.0028 (4) |
O2 | 0.0316 (6) | 0.0267 (5) | 0.0172 (5) | −0.0033 (6) | −0.0014 (5) | −0.0011 (4) |
O3 | 0.0290 (6) | 0.0155 (5) | 0.0151 (5) | 0.0016 (4) | −0.0015 (4) | −0.0013 (3) |
N1 | 0.0258 (6) | 0.0151 (5) | 0.0188 (6) | 0.0035 (5) | −0.0003 (5) | −0.0016 (4) |
N2 | 0.0152 (5) | 0.0141 (5) | 0.0163 (5) | −0.0003 (4) | −0.0002 (4) | 0.0006 (4) |
C1 | 0.0168 (6) | 0.0136 (5) | 0.0167 (6) | −0.0008 (5) | −0.0016 (5) | 0.0004 (4) |
C2 | 0.0168 (6) | 0.0136 (6) | 0.0169 (6) | −0.0011 (5) | −0.0010 (5) | 0.0016 (4) |
C3 | 0.0154 (6) | 0.0158 (6) | 0.0169 (6) | 0.0007 (5) | −0.0016 (5) | −0.0013 (4) |
C4 | 0.0213 (7) | 0.0130 (5) | 0.0195 (6) | −0.0017 (5) | 0.0001 (5) | 0.0000 (5) |
C5 | 0.0166 (6) | 0.0138 (5) | 0.0191 (6) | −0.0013 (5) | 0.0004 (6) | 0.0010 (5) |
C6 | 0.0138 (6) | 0.0142 (5) | 0.0154 (5) | 0.0001 (5) | 0.0004 (5) | −0.0003 (4) |
C7 | 0.0190 (6) | 0.0167 (6) | 0.0164 (6) | −0.0002 (5) | −0.0007 (5) | 0.0016 (5) |
C8 | 0.0176 (6) | 0.0188 (6) | 0.0192 (6) | −0.0014 (6) | −0.0003 (6) | 0.0006 (5) |
C9 | 0.0256 (7) | 0.0200 (6) | 0.0159 (6) | 0.0019 (6) | −0.0014 (6) | −0.0002 (5) |
O1—N1 | 1.3807 (16) | C2—H2A | 0.97 (2) |
O1—C8 | 1.4227 (19) | C3—C4 | 1.398 (2) |
O2—C8 | 1.2174 (18) | C4—C5 | 1.381 (2) |
O3—C3 | 1.3613 (17) | C4—H4A | 0.95 (2) |
O3—C9 | 1.4421 (18) | C5—C6 | 1.398 (2) |
N1—N2 | 1.3158 (16) | C5—H5A | 0.961 (19) |
N2—C7 | 1.3434 (17) | C7—C8 | 1.408 (2) |
N2—C6 | 1.4356 (18) | C7—H7A | 0.98 (2) |
C1—C6 | 1.388 (2) | C9—H9A | 0.97 (2) |
C1—C2 | 1.3940 (19) | C9—H9B | 0.95 (2) |
C1—H1A | 1.00 (2) | C9—H9C | 0.99 (3) |
C2—C3 | 1.3976 (19) | ||
N1—O1—C8 | 111.11 (12) | C4—C5—C6 | 118.61 (13) |
C3—O3—C9 | 117.27 (11) | C4—C5—H5A | 121.9 (11) |
N2—N1—O1 | 103.69 (12) | C6—C5—H5A | 119.4 (11) |
N1—N2—C7 | 115.30 (12) | C1—C6—C5 | 121.77 (14) |
N1—N2—C6 | 117.68 (12) | C1—C6—N2 | 119.22 (13) |
C7—N2—C6 | 127.02 (12) | C5—C6—N2 | 119.00 (13) |
C6—C1—C2 | 119.11 (13) | N2—C7—C8 | 106.54 (13) |
C6—C1—H1A | 121.0 (11) | N2—C7—H7A | 123.4 (12) |
C2—C1—H1A | 119.9 (11) | C8—C7—H7A | 130.1 (12) |
C1—C2—C3 | 119.76 (13) | O2—C8—C7 | 137.09 (16) |
C1—C2—H2A | 120.5 (13) | O2—C8—O1 | 119.56 (14) |
C3—C2—H2A | 119.8 (13) | C7—C8—O1 | 103.34 (12) |
O3—C3—C4 | 115.89 (13) | O3—C9—H9A | 109.4 (12) |
O3—C3—C2 | 124.01 (13) | O3—C9—H9B | 110.2 (12) |
C4—C3—C2 | 120.10 (13) | H9A—C9—H9B | 107.0 (17) |
C5—C4—C3 | 120.65 (13) | O3—C9—H9C | 112.3 (15) |
C5—C4—H4A | 119.4 (12) | H9A—C9—H9C | 109.3 (18) |
C3—C4—H4A | 119.8 (12) | H9B—C9—H9C | 108.5 (19) |
C8—O1—N1—N2 | −0.84 (16) | C4—C5—C6—C1 | −0.2 (2) |
O1—N1—N2—C7 | 0.46 (17) | C4—C5—C6—N2 | −179.47 (14) |
O1—N1—N2—C6 | −179.58 (12) | N1—N2—C6—C1 | 30.90 (19) |
C6—C1—C2—C3 | −0.2 (2) | C7—N2—C6—C1 | −149.14 (15) |
C9—O3—C3—C4 | 169.99 (14) | N1—N2—C6—C5 | −149.86 (15) |
C9—O3—C3—C2 | −10.3 (2) | C7—N2—C6—C5 | 30.1 (2) |
C1—C2—C3—O3 | −179.64 (13) | N1—N2—C7—C8 | 0.09 (18) |
C1—C2—C3—C4 | 0.0 (2) | C6—N2—C7—C8 | −179.87 (13) |
O3—C3—C4—C5 | 179.72 (14) | N2—C7—C8—O2 | −179.70 (19) |
C2—C3—C4—C5 | 0.0 (2) | N2—C7—C8—O1 | −0.58 (16) |
C3—C4—C5—C6 | 0.1 (2) | N1—O1—C8—O2 | −179.79 (14) |
C2—C1—C6—C5 | 0.3 (2) | N1—O1—C8—C7 | 0.89 (17) |
C2—C1—C6—N2 | 179.53 (13) |
D—H···A | D—H | H···A | D···A | D—H···A |
C1—H1A···O2i | 1.00 (2) | 2.59 (2) | 3.5441 (19) | 159.1 (15) |
C7—H7A···O3ii | 0.98 (2) | 2.42 (2) | 3.3814 (18) | 165.7 (17) |
Symmetry codes: (i) −x+1/2, −y+2, z−1/2; (ii) −x+1/2, −y+1, z+1/2. |
Experimental details
Crystal data | |
Chemical formula | C9H8N2O3 |
Mr | 192.17 |
Crystal system, space group | Orthorhombic, P212121 |
Temperature (K) | 100 |
a, b, c (Å) | 7.0505 (2), 9.8220 (3), 12.0934 (3) |
V (Å3) | 837.47 (4) |
Z | 4 |
Radiation type | Mo Kα |
µ (mm−1) | 0.12 |
Crystal size (mm) | 0.56 × 0.15 × 0.14 |
Data collection | |
Diffractometer | Bruker SMART APEXII CCD area-detector |
Absorption correction | Multi-scan (SADABS; Bruker, 2009) |
Tmin, Tmax | 0.938, 0.984 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 7384, 1760, 1577 |
Rint | 0.031 |
(sin θ/λ)max (Å−1) | 0.760 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.037, 0.100, 1.06 |
No. of reflections | 1760 |
No. of parameters | 159 |
H-atom treatment | All H-atom parameters refined |
Δρmax, Δρmin (e Å−3) | 0.32, −0.26 |
Computer programs: APEX2 (Bruker, 2009), SAINT (Bruker, 2009), SHELXTL (Sheldrick, 2008) and PLATON (Spek, 2009).
D—H···A | D—H | H···A | D···A | D—H···A |
C1—H1A···O2i | 1.00 (2) | 2.59 (2) | 3.5441 (19) | 159.1 (15) |
C7—H7A···O3ii | 0.98 (2) | 2.42 (2) | 3.3814 (18) | 165.7 (17) |
Symmetry codes: (i) −x+1/2, −y+2, z−1/2; (ii) −x+1/2, −y+1, z+1/2. |
Acknowledgements
The authors thank Universiti Sains Malaysia (USM) for the Research University Grant (No. 1001/PFIZIK/811160).
References
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Sydnones constitute a well-defined class of mesoionic compounds consisting of 1,2,3-oxadiazole ring system. The study of sydnones still remains a field of interest because of their electronic structure and also because of the varied types of biological activity displayed by some of them (Rai et al., 2008). Sydnone derivatives were found to exhibit promising anti-microbial properties (Hegde et al., 2008). Sydnones are synthesized by the cyclodehydration of N-nitroso-N-substituted amino acids using acetic anhydride. The sydnones unsubstituted in the 4-position readily undergo typical electrophilic substitution reaction namely formylation (Kalluraya & Rahiman, 1997) and acetylation (Kalluraya et al., 2002).
In the title sydnone compound (Fig. 1), the 1,2,3-oxadiazole ring with atom sequence C7/C8/O1/N1/N2 is essentially planar, with a maximum deviation of 0.005 (1) Å at atom O1. The whole molecule is not planar, as indicated by the dihedral angle formed between the 1,2,3-oxadiazole and phenyl rings of 30.32 (8)°. Comparing with those previously reported structures with substitution at the 4-position of the sydnone moiety (Goh et al., 2010a,c), the exocyclic C8—O2 bond length [1.2174 (8) Å] is longer than the respective values observed [1.193 (3) and 1.2089 (9) Å]. All other geometric parameters agree well with those observed in closely related sydnone structures (Goh et al., 2010a,b,c).
In the crystal packing, intermolecular C1—H1A···O2 and C7—H7A···O3 hydrogen bonds (Table 1) link adjacent molecules into two-dimensional sheets lying parallel to the bc plane (Fig. 2). The crystal packing is further stabilized by weak intermolecular π–π interactions [Cg1···Cg2 = 3.5812 (8) Å; symmetry code: x-1/2, -y+3/2, -z+1] involving the 1,2,3-oxadiazole and phenyl rings.