Abstract
The title compound, C13H9N3O3, was prepared by the reaction of 5-nitrosalicylaldehyde with 1,2-diaminobenzene in methanol. The whole molecule is approximately planar, with a mean deviation from the plane defined by the non-H atoms of 0.0311 (4) Å, and with a dihedral angle between the benzene ring and the benzimidazole ring system of 1.1 (3)°. An intramolecular O—H⋯N hydrogen bond occurs. In the crystal, adjacent molecules are linked through intermolecular N—H⋯O hydrogen bonds, forming centrosymmetric dimers.
Related literature
For Schiff base compounds, see: Miura et al. (2009 ▶); Zhao et al. (2010 ▶); Karadağ et al. (2011) ▶; Bingöl Alpaslan et al. (2010 ▶). For bond-length data, see: Allen et al. (1987 ▶).
Experimental
Crystal data
C13H9N3O3
M r = 255.23
Monoclinic,
a = 8.117 (3) Å
b = 6.769 (2) Å
c = 20.842 (3) Å
β = 99.235 (2)°
V = 1130.2 (5) Å3
Z = 4
Mo Kα radiation
μ = 0.11 mm−1
T = 298 K
0.20 × 0.20 × 0.18 mm
Data collection
Bruker SMART CCD area-detector diffractometer
Absorption correction: multi-scan (SADABS; Bruker, 2001 ▶) T min = 0.978, T max = 0.980
8933 measured reflections
2469 independent reflections
1283 reflections with I > 2σ(I)
R int = 0.061
Refinement
R[F 2 > 2σ(F 2)] = 0.068
wR(F 2) = 0.153
S = 1.04
2469 reflections
176 parameters
1 restraint
H atoms treated by a mixture of independent and constrained refinement
Δρmax = 0.20 e Å−3
Δρmin = −0.14 e Å−3
Data collection: SMART (Bruker, 2007 ▶); cell refinement: SAINT (Bruker, 2007 ▶); data reduction: SAINT; 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.
Supplementary Material
Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536811001644/hg2791sup1.cif
Structure factors: contains datablocks I. DOI: 10.1107/S1600536811001644/hg2791Isup2.hkl
Additional supplementary materials: crystallographic information; 3D view; checkCIF report
Table 1. Hydrogen-bond geometry (Å, °).
| D—H⋯A | D—H | H⋯A | D⋯A | D—H⋯A |
|---|---|---|---|---|
| N2—H2⋯O2i | 0.90 (1) | 2.02 (1) | 2.898 (3) | 164 (3) |
| O1—H1⋯N1 | 0.82 | 1.85 | 2.590 (3) | 149 |
Symmetry code: (i)
.
supplementary crystallographic information
Comment
The condensation reaction between aldehydes with organic primary amines readily forms Schiff bases containing the typical –C=N– groups (Miura et al., 2009; Zhao et al., 2010; Karadağ et al., 2011; Bingöl Alpaslan et al., 2010). In this paper, the title compound (Fig. 1) was prepared by the reaction of 5-nitrosalicylaldehyde with 1,2-diaminobenzene in methanol.
The whole molecule of the compound is approximately planar, with mean deviation from the plane defined by the non-hydrogen atoms of 0.0311 (4) Å, and with the dihedral angle between the benzene ring and the Benzimidazole ring of 1.1 (3)°. All the bond lengths are within normal ranges (Allen et al., 1987). There is an intramolecular O—H···N hydrogen bond in the molecule (Table 1). In the crystal structure, adjacent two molecules are linked through intermolecular N—H···O hydrogen bonds (Table 1) to form a dimer (Fig. 2).
Experimental
5-Nitrosalicylaldehyde (1.0 mmol, 0.167 g) and 1,2-diaminobenzene (0.5 mmol, 0.054 g) were refluxed for 30 min in 30 ml me thanol, and cooled to room temperature to give colorless solid, which was isolated by filtration. Single crystals of the title compound were formed by recrystallization of the solid in methanol.
Refinement
H2 was located in a difference Fourier map and refined isotropically, with the N—H distance restrained to 0.90 (1) Å. The other H atoms were positioned geometrically and refined using the riding-model approximation, with C–H = 0.93 Å, and O–H = 0.82 Å, and Uiso(H) = 1.2Ueq(C) or Uiso(H) = 1.5Ueq(O).
Figures
Fig. 1.
The molecular structure of the title compounds with atom labels and the 30% probability displacement ellipsoids. Intramolecular O—H···O hydrogen bond is shown as a dashed line.
Fig. 2.
The molecular packing of the title compound. Hydrogen bonds are shown as dashed lines.
Crystal data
| C13H9N3O3 | F(000) = 528 |
| Mr = 255.23 | Dx = 1.500 Mg m−3 |
| Monoclinic, P21/c | Mo Kα radiation, λ = 0.71073 Å |
| Hall symbol: -P 2ybc | Cell parameters from 1124 reflections |
| a = 8.117 (3) Å | θ = 2.5–24.5° |
| b = 6.769 (2) Å | µ = 0.11 mm−1 |
| c = 20.842 (3) Å | T = 298 K |
| β = 99.235 (2)° | Block, yellow |
| V = 1130.2 (5) Å3 | 0.20 × 0.20 × 0.18 mm |
| Z = 4 |
Data collection
| Bruker SMART CCD area-detector diffractometer | 2469 independent reflections |
| Radiation source: fine-focus sealed tube | 1283 reflections with I > 2σ(I) |
| graphite | Rint = 0.061 |
| ω scans | θmax = 27.0°, θmin = 2.5° |
| Absorption correction: multi-scan (SADABS; Bruker, 2001) | h = −10→10 |
| Tmin = 0.978, Tmax = 0.980 | k = −8→8 |
| 8933 measured reflections | l = −26→24 |
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)] = 0.068 | Hydrogen site location: inferred from neighbouring sites |
| wR(F2) = 0.153 | H atoms treated by a mixture of independent and constrained refinement |
| S = 1.04 | w = 1/[σ2(Fo2) + (0.0589P)2 + 0.1494P] where P = (Fo2 + 2Fc2)/3 |
| 2469 reflections | (Δ/σ)max < 0.001 |
| 176 parameters | Δρmax = 0.20 e Å−3 |
| 1 restraint | Δρmin = −0.14 e Å−3 |
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 | ||
| O1 | 0.7974 (3) | 0.7492 (3) | 0.12518 (10) | 0.0680 (7) | |
| H1 | 0.8172 | 0.7776 | 0.0889 | 0.102* | |
| O2 | 0.4484 (3) | −0.0641 (3) | 0.07368 (10) | 0.0687 (7) | |
| O3 | 0.4555 (3) | −0.0423 (3) | 0.17662 (11) | 0.0764 (8) | |
| N1 | 0.8286 (3) | 0.7006 (4) | 0.00445 (12) | 0.0547 (7) | |
| N2 | 0.7411 (3) | 0.4267 (3) | −0.04913 (12) | 0.0495 (7) | |
| N3 | 0.4870 (3) | 0.0226 (4) | 0.12571 (12) | 0.0520 (7) | |
| C1 | 0.6985 (3) | 0.4551 (4) | 0.06634 (13) | 0.0425 (7) | |
| C2 | 0.7228 (4) | 0.5722 (4) | 0.12303 (15) | 0.0477 (8) | |
| C3 | 0.6712 (4) | 0.5046 (5) | 0.17926 (14) | 0.0562 (9) | |
| H3 | 0.6878 | 0.5828 | 0.2164 | 0.067* | |
| C4 | 0.5966 (4) | 0.3252 (4) | 0.18085 (14) | 0.0492 (8) | |
| H4 | 0.5632 | 0.2799 | 0.2189 | 0.059* | |
| C5 | 0.5710 (3) | 0.2113 (4) | 0.12517 (14) | 0.0425 (7) | |
| C6 | 0.6205 (3) | 0.2741 (4) | 0.06832 (13) | 0.0423 (7) | |
| H6 | 0.6016 | 0.1950 | 0.0314 | 0.051* | |
| C7 | 0.7560 (3) | 0.5267 (4) | 0.00778 (14) | 0.0461 (7) | |
| C8 | 0.8628 (4) | 0.7151 (4) | −0.05876 (14) | 0.0484 (8) | |
| C9 | 0.8092 (3) | 0.5440 (4) | −0.09285 (15) | 0.0475 (7) | |
| C10 | 0.8259 (4) | 0.5165 (5) | −0.15689 (15) | 0.0594 (9) | |
| H10 | 0.7902 | 0.4011 | −0.1791 | 0.071* | |
| C11 | 0.8983 (4) | 0.6692 (5) | −0.18671 (16) | 0.0645 (10) | |
| H11 | 0.9114 | 0.6565 | −0.2300 | 0.077* | |
| C12 | 0.9518 (4) | 0.8413 (5) | −0.15324 (18) | 0.0694 (10) | |
| H12 | 0.9996 | 0.9414 | −0.1747 | 0.083* | |
| C13 | 0.9354 (4) | 0.8666 (5) | −0.08904 (17) | 0.0645 (9) | |
| H13 | 0.9719 | 0.9816 | −0.0668 | 0.077* | |
| H2 | 0.698 (4) | 0.307 (2) | −0.0610 (15) | 0.080* |
Atomic displacement parameters (Å2)
| U11 | U22 | U33 | U12 | U13 | U23 | |
| O1 | 0.0862 (18) | 0.0561 (14) | 0.0638 (17) | −0.0234 (12) | 0.0183 (14) | −0.0113 (11) |
| O2 | 0.1090 (19) | 0.0552 (13) | 0.0445 (14) | −0.0268 (12) | 0.0203 (13) | −0.0100 (11) |
| O3 | 0.122 (2) | 0.0662 (15) | 0.0487 (14) | −0.0165 (14) | 0.0369 (14) | 0.0101 (12) |
| N1 | 0.0620 (18) | 0.0552 (15) | 0.0460 (17) | −0.0161 (13) | 0.0055 (13) | 0.0067 (13) |
| N2 | 0.0588 (17) | 0.0435 (14) | 0.0465 (16) | −0.0102 (12) | 0.0096 (13) | 0.0012 (13) |
| N3 | 0.0713 (18) | 0.0478 (15) | 0.0403 (16) | −0.0029 (13) | 0.0192 (13) | 0.0019 (13) |
| C1 | 0.0475 (18) | 0.0399 (16) | 0.0387 (17) | −0.0038 (14) | 0.0033 (14) | 0.0005 (13) |
| C2 | 0.0458 (18) | 0.0434 (17) | 0.052 (2) | −0.0057 (14) | 0.0037 (15) | −0.0061 (15) |
| C3 | 0.070 (2) | 0.058 (2) | 0.0413 (19) | −0.0124 (17) | 0.0117 (16) | −0.0126 (16) |
| C4 | 0.061 (2) | 0.0553 (19) | 0.0328 (17) | −0.0008 (16) | 0.0108 (15) | −0.0021 (15) |
| C5 | 0.0489 (18) | 0.0390 (15) | 0.0393 (18) | −0.0027 (14) | 0.0058 (14) | 0.0026 (13) |
| C6 | 0.0547 (18) | 0.0418 (16) | 0.0302 (16) | −0.0045 (14) | 0.0061 (13) | −0.0025 (13) |
| C7 | 0.0497 (18) | 0.0412 (16) | 0.0462 (19) | −0.0073 (14) | 0.0038 (14) | 0.0028 (15) |
| C8 | 0.0494 (19) | 0.0516 (18) | 0.0422 (19) | −0.0055 (15) | 0.0014 (15) | 0.0085 (15) |
| C9 | 0.0442 (18) | 0.0535 (18) | 0.0447 (19) | −0.0026 (15) | 0.0070 (14) | 0.0107 (15) |
| C10 | 0.063 (2) | 0.065 (2) | 0.050 (2) | 0.0030 (17) | 0.0071 (16) | 0.0009 (17) |
| C11 | 0.069 (2) | 0.082 (3) | 0.045 (2) | 0.003 (2) | 0.0157 (18) | 0.0130 (19) |
| C12 | 0.070 (2) | 0.075 (2) | 0.064 (3) | −0.009 (2) | 0.0121 (19) | 0.028 (2) |
| C13 | 0.070 (2) | 0.061 (2) | 0.062 (2) | −0.0165 (18) | 0.0115 (18) | 0.0127 (18) |
Geometric parameters (Å, °)
| O1—C2 | 1.340 (3) | C3—H3 | 0.9300 |
| O1—H1 | 0.8200 | C4—C5 | 1.381 (4) |
| O2—N3 | 1.228 (3) | C4—H4 | 0.9300 |
| O3—N3 | 1.213 (3) | C5—C6 | 1.378 (4) |
| N1—C7 | 1.323 (3) | C6—H6 | 0.9300 |
| N1—C8 | 1.393 (4) | C8—C13 | 1.384 (4) |
| N2—C7 | 1.354 (3) | C8—C9 | 1.392 (4) |
| N2—C9 | 1.388 (3) | C9—C10 | 1.376 (4) |
| N2—H2 | 0.902 (10) | C10—C11 | 1.385 (4) |
| N3—C5 | 1.449 (3) | C10—H10 | 0.9300 |
| C1—C6 | 1.383 (4) | C11—C12 | 1.391 (5) |
| C1—C2 | 1.410 (4) | C11—H11 | 0.9300 |
| C1—C7 | 1.458 (4) | C12—C13 | 1.376 (5) |
| C2—C3 | 1.384 (4) | C12—H12 | 0.9300 |
| C3—C4 | 1.360 (4) | C13—H13 | 0.9300 |
| C2—O1—H1 | 109.5 | C5—C6—H6 | 120.1 |
| C7—N1—C8 | 105.7 (2) | C1—C6—H6 | 120.1 |
| C7—N2—C9 | 107.5 (2) | N1—C7—N2 | 112.1 (2) |
| C7—N2—H2 | 132 (2) | N1—C7—C1 | 123.0 (3) |
| C9—N2—H2 | 121 (2) | N2—C7—C1 | 124.9 (2) |
| O3—N3—O2 | 122.7 (3) | C13—C8—C9 | 120.3 (3) |
| O3—N3—C5 | 119.4 (3) | C13—C8—N1 | 130.4 (3) |
| O2—N3—C5 | 117.9 (2) | C9—C8—N1 | 109.3 (2) |
| C6—C1—C2 | 118.4 (3) | C10—C9—N2 | 132.1 (3) |
| C6—C1—C7 | 121.9 (2) | C10—C9—C8 | 122.5 (3) |
| C2—C1—C7 | 119.6 (2) | N2—C9—C8 | 105.4 (3) |
| O1—C2—C3 | 117.6 (3) | C9—C10—C11 | 116.7 (3) |
| O1—C2—C1 | 122.2 (3) | C9—C10—H10 | 121.7 |
| C3—C2—C1 | 120.2 (3) | C11—C10—H10 | 121.7 |
| C4—C3—C2 | 120.8 (3) | C10—C11—C12 | 121.4 (3) |
| C4—C3—H3 | 119.6 | C10—C11—H11 | 119.3 |
| C2—C3—H3 | 119.6 | C12—C11—H11 | 119.3 |
| C3—C4—C5 | 119.1 (3) | C13—C12—C11 | 121.4 (3) |
| C3—C4—H4 | 120.5 | C13—C12—H12 | 119.3 |
| C5—C4—H4 | 120.5 | C11—C12—H12 | 119.3 |
| C6—C5—C4 | 121.7 (3) | C12—C13—C8 | 117.7 (3) |
| C6—C5—N3 | 118.8 (2) | C12—C13—H13 | 121.1 |
| C4—C5—N3 | 119.6 (3) | C8—C13—H13 | 121.1 |
| C5—C6—C1 | 119.8 (2) |
Hydrogen-bond geometry (Å, °)
| D—H···A | D—H | H···A | D···A | D—H···A |
| N2—H2···O2i | 0.90 (1) | 2.02 (1) | 2.898 (3) | 164 (3) |
| O1—H1···N1 | 0.82 | 1.85 | 2.590 (3) | 149 |
Symmetry codes: (i) −x+1, −y, −z.
Footnotes
Supplementary data and figures for this paper are available from the IUCr electronic archives (Reference: HG2791).
References
- 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.
- Bingöl Alpaslan, Y., Alpaslan, G., Ağar, A. & Işık, Ş. (2010). Acta Cryst. E66, o510. [DOI] [PMC free article] [PubMed]
- Bruker (2001). SADABS Bruker AXS Inc., Madison, Wisconsin, USA.
- Bruker (2007). SMART and SAINT Bruker AXS Inc., Madison, Wisconsin, USA.
- Karadağ, A. T., Atalay, Ş. & Genç, H. (2011). Acta Cryst. E67, o95. [DOI] [PMC free article] [PubMed]
- Miura, Y., Aritake, Y. & Akitsu, T. (2009). Acta Cryst. E65, o2381. [DOI] [PMC free article] [PubMed]
- Sheldrick, G. M. (2008). Acta Cryst. A64, 112–122. [DOI] [PubMed]
- Zhao, L., Cao, D. & Cui, J. (2010). Acta Cryst. E66, o2204. [DOI] [PMC free article] [PubMed]
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/S1600536811001644/hg2791sup1.cif
Structure factors: contains datablocks I. DOI: 10.1107/S1600536811001644/hg2791Isup2.hkl
Additional supplementary materials: crystallographic information; 3D view; checkCIF report


