organic compounds
2-(1H-Benzimidazol-2-yl)-4,6-dichlorophenol
aHunan Yongzhou Vocational College, Yongzhou Hunan 425100, People's Republic of China
*Correspondence e-mail: yzzyhll@126.com
The title compound, C13H8Cl2N2O, was prepared by the reaction of 3,5-dichloro-2-hydroxybenzaldehyde with 1,2-diaminobenzene in methanol at ambient temperature. The title molecule is essentially planar, the mean deviation from the plane of the non-H atoms being 0.037 (2) Å. There is an intramolecular O—H⋯N hydrogen bond in the molecule. In the crystal, symmetry-related molecules are linked through N—H⋯O hydrogen bonds, forming polymeric chains propagating in [001]. The chains are linked by π–π interactions involving the dichlorophenol ring and the benzoimidazole ring system [centroid–centroid distances = 3.535 (2) and 3.724 (2) Å].
Related literature
For the preparation and crystal structures of some et al. (2010); Hamaker et al. (2010); Tanaka et al. (2010); Tunç et al. (2009); Khalaji et al. (2010). For standard bond distances, see: Allen et al. (1987).
bearing a C=N double bond, see: JeseentharaniExperimental
Crystal data
|
Refinement
|
Data collection: SMART (Bruker, 2007); cell SAINT (Bruker, 2007); data reduction: SAINT; 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.
Supporting information
https://doi.org/10.1107/S1600536810027844/su2193sup1.cif
contains datablocks global, I. DOI:Structure factors: contains datablock I. DOI: https://doi.org/10.1107/S1600536810027844/su2193Isup2.hkl
3,5-Dichloro-2-hydroxybenzaldehyde (1 mmol, 0.19 g) and 1,2-diaminobenzene (1 mmol, 0.11 g) were dissolved in methanol (30 ml). The mixture was stirred for 30 mins. at RT to give a yellow solution. Yellow single crystals were obtained by slow evaporation of the solution in air.
Atom H1A was located in a difference Fourier map and its positional parameters were refined with a fixed isotropic thermal parameter of 0.08 Å2. The remaining H-atoms were positioned geometrically and refined as riding: C—H = 0.93 Å, O—H = 0.82 Å, with Uiso(H) = 1.2Ueq(C) and 1.5Ueq(O).
The condensation reaction of
with primary readily leads to the formation of bearing a C=N double bond (Jeseentharani et al., 2010; Hamaker et al., 2010; Tanaka et al., 2010; Tunç et al., 2009; Khalaji et al., 2010). Herein, we report on the structure of the title compound, the unexpected result of the Schiff base condensation reaction of 3,5-dichloro-2-hydroxybenzaldehyde with 1,2-diaminobenzene.The title molecule (Fig. 1) is essentially planar, with the mean deviation from the plane of all the non-H atoms being 0.037 (2) Å. There is an intramolecular O—H···N hydrogen bond (Table 1) in the molecule, as shown in Fig. 1. All the bond lengths are within normal ranges (Allen et al., 1987).
In the crystal symmetry related molecules are linked through an intermolecular N—H···O hydrogen bond to form polymer chains propagating in [001] (Table 1 and Fig. 2). These chains are linked via π–π stacking interactions involving rings N1/N2/C7-C9 and C1-C6 [symmetry operation: 2-x, 2-y, 1-y], with a centroid-to-centroid distance of 3.535 (2) Å, and rings C1-C6 and C8-C13 [symmetry code: 2-x, 1-y, 1-z], with a centroid-to-centroid distance of 3.724 (2)Å.
For the preparation and crystal structures of some ═ N double bond, see: Jeseentharani et al. (2010); Hamaker et al. (2010); Tanaka et al. (2010); Tunç et al. (2009); Khalaji et al. (2010). For standard bond distances, see: Allen et al. (1987).
bearing a CData collection: SMART (Bruker, 2007); cell
SAINT (Bruker, 2007); 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: SHELXTL (Sheldrick, 2008); software used to prepare material for publication: SHELXTL (Sheldrick, 2008).C13H8Cl2N2O | F(000) = 568 |
Mr = 279.11 | Dx = 1.554 Mg m−3 |
Monoclinic, P21/c | Mo Kα radiation, λ = 0.71073 Å |
Hall symbol: -P 2ybc | Cell parameters from 1560 reflections |
a = 11.850 (3) Å | θ = 3.0–26.2° |
b = 7.446 (3) Å | µ = 0.53 mm−1 |
c = 13.947 (2) Å | T = 298 K |
β = 104.261 (3)° | Block, yellow |
V = 1192.7 (6) Å3 | 0.21 × 0.20 × 0.18 mm |
Z = 4 |
Bruker SMART CCD area-detector diffractometer | 2562 independent reflections |
Radiation source: fine-focus sealed tube | 1810 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.035 |
ω scans | θmax = 27.0°, θmin = 3.0° |
Absorption correction: multi-scan (SADABS; Bruker, 2001) | h = −15→12 |
Tmin = 0.897, Tmax = 0.911 | k = −9→9 |
6117 measured reflections | l = −12→17 |
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)] = 0.042 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.127 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.03 | w = 1/[σ2(Fo2) + (0.0678P)2] where P = (Fo2 + 2Fc2)/3 |
2562 reflections | (Δ/σ)max = 0.001 |
167 parameters | Δρmax = 0.26 e Å−3 |
1 restraint | Δρmin = −0.23 e Å−3 |
C13H8Cl2N2O | V = 1192.7 (6) Å3 |
Mr = 279.11 | Z = 4 |
Monoclinic, P21/c | Mo Kα radiation |
a = 11.850 (3) Å | µ = 0.53 mm−1 |
b = 7.446 (3) Å | T = 298 K |
c = 13.947 (2) Å | 0.21 × 0.20 × 0.18 mm |
β = 104.261 (3)° |
Bruker SMART CCD area-detector diffractometer | 2562 independent reflections |
Absorption correction: multi-scan (SADABS; Bruker, 2001) | 1810 reflections with I > 2σ(I) |
Tmin = 0.897, Tmax = 0.911 | Rint = 0.035 |
6117 measured reflections |
R[F2 > 2σ(F2)] = 0.042 | 1 restraint |
wR(F2) = 0.127 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.03 | Δρmax = 0.26 e Å−3 |
2562 reflections | Δρmin = −0.23 e Å−3 |
167 parameters |
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. |
x | y | z | Uiso*/Ueq | ||
Cl1 | 1.19596 (6) | 0.99614 (9) | 0.79805 (4) | 0.0505 (2) | |
Cl2 | 1.37522 (5) | 0.87011 (11) | 0.48582 (5) | 0.0602 (3) | |
N1 | 0.91704 (15) | 0.6598 (3) | 0.37972 (14) | 0.0350 (4) | |
N2 | 0.85158 (15) | 0.7146 (3) | 0.51409 (13) | 0.0361 (4) | |
O1 | 0.98220 (14) | 0.8474 (2) | 0.67436 (12) | 0.0469 (4) | |
H1 | 0.9240 | 0.8028 | 0.6378 | 0.070* | |
C1 | 1.05692 (18) | 0.7881 (3) | 0.52982 (15) | 0.0312 (5) | |
C2 | 1.06961 (18) | 0.8491 (3) | 0.62790 (16) | 0.0337 (5) | |
C3 | 1.1788 (2) | 0.9158 (3) | 0.67846 (15) | 0.0345 (5) | |
C4 | 1.27187 (19) | 0.9217 (3) | 0.63599 (16) | 0.0389 (5) | |
H4 | 1.3434 | 0.9663 | 0.6713 | 0.047* | |
C5 | 1.25768 (19) | 0.8605 (3) | 0.53975 (17) | 0.0376 (5) | |
C6 | 1.15119 (19) | 0.7967 (3) | 0.48692 (16) | 0.0360 (5) | |
H6 | 1.1423 | 0.7590 | 0.4219 | 0.043* | |
C7 | 0.94248 (18) | 0.7206 (3) | 0.47531 (15) | 0.0328 (5) | |
C8 | 0.79936 (19) | 0.6132 (3) | 0.35518 (16) | 0.0352 (5) | |
C9 | 0.75956 (18) | 0.6484 (3) | 0.44004 (17) | 0.0365 (5) | |
C10 | 0.6424 (2) | 0.6198 (4) | 0.43936 (19) | 0.0489 (7) | |
H10 | 0.6147 | 0.6440 | 0.4949 | 0.059* | |
C11 | 0.5702 (2) | 0.5549 (4) | 0.3542 (2) | 0.0584 (8) | |
H11 | 0.4922 | 0.5346 | 0.3520 | 0.070* | |
C12 | 0.6117 (2) | 0.5182 (4) | 0.2698 (2) | 0.0596 (8) | |
H12 | 0.5604 | 0.4730 | 0.2135 | 0.071* | |
C13 | 0.7263 (2) | 0.5474 (3) | 0.26834 (19) | 0.0485 (6) | |
H13 | 0.7532 | 0.5244 | 0.2123 | 0.058* | |
H1A | 0.968 (2) | 0.649 (4) | 0.342 (2) | 0.080* |
U11 | U22 | U33 | U12 | U13 | U23 | |
Cl1 | 0.0599 (5) | 0.0604 (4) | 0.0299 (3) | −0.0096 (3) | 0.0084 (3) | −0.0027 (3) |
Cl2 | 0.0373 (4) | 0.0907 (6) | 0.0589 (4) | −0.0105 (3) | 0.0236 (3) | −0.0014 (4) |
N1 | 0.0306 (10) | 0.0409 (11) | 0.0340 (10) | −0.0020 (8) | 0.0090 (8) | −0.0018 (8) |
N2 | 0.0306 (10) | 0.0451 (12) | 0.0341 (10) | 0.0002 (9) | 0.0106 (8) | 0.0037 (8) |
O1 | 0.0365 (9) | 0.0717 (13) | 0.0367 (9) | −0.0072 (8) | 0.0171 (7) | −0.0077 (8) |
C1 | 0.0297 (11) | 0.0315 (12) | 0.0326 (11) | 0.0013 (9) | 0.0085 (9) | 0.0032 (9) |
C2 | 0.0327 (12) | 0.0374 (13) | 0.0326 (11) | 0.0040 (9) | 0.0112 (9) | 0.0065 (9) |
C3 | 0.0384 (13) | 0.0367 (13) | 0.0283 (11) | 0.0003 (10) | 0.0077 (9) | 0.0038 (9) |
C4 | 0.0318 (13) | 0.0438 (14) | 0.0384 (12) | −0.0037 (10) | 0.0034 (10) | 0.0046 (10) |
C5 | 0.0303 (12) | 0.0433 (14) | 0.0409 (13) | 0.0004 (10) | 0.0118 (10) | 0.0048 (10) |
C6 | 0.0349 (12) | 0.0411 (14) | 0.0338 (11) | −0.0007 (10) | 0.0123 (10) | −0.0020 (10) |
C7 | 0.0331 (12) | 0.0339 (12) | 0.0320 (11) | 0.0028 (10) | 0.0088 (9) | 0.0043 (9) |
C8 | 0.0299 (12) | 0.0370 (13) | 0.0382 (12) | 0.0004 (9) | 0.0073 (9) | 0.0048 (10) |
C9 | 0.0281 (12) | 0.0399 (13) | 0.0402 (12) | 0.0007 (10) | 0.0058 (10) | 0.0074 (10) |
C10 | 0.0343 (13) | 0.0657 (18) | 0.0486 (15) | −0.0014 (12) | 0.0138 (11) | 0.0071 (12) |
C11 | 0.0297 (13) | 0.082 (2) | 0.0626 (18) | −0.0054 (14) | 0.0087 (13) | 0.0066 (15) |
C12 | 0.0426 (16) | 0.075 (2) | 0.0530 (16) | −0.0102 (14) | −0.0035 (13) | −0.0045 (14) |
C13 | 0.0425 (15) | 0.0583 (17) | 0.0435 (14) | −0.0053 (13) | 0.0082 (11) | −0.0039 (12) |
Cl1—C3 | 1.736 (2) | C4—C5 | 1.388 (3) |
Cl2—C5 | 1.740 (2) | C4—H4 | 0.9300 |
N1—C7 | 1.370 (3) | C5—C6 | 1.379 (3) |
N1—C8 | 1.395 (3) | C6—H6 | 0.9300 |
N1—H1A | 0.90 (3) | C8—C13 | 1.393 (3) |
N2—C7 | 1.320 (3) | C8—C9 | 1.403 (3) |
N2—C9 | 1.394 (3) | C9—C10 | 1.402 (3) |
O1—C2 | 1.350 (2) | C10—C11 | 1.369 (4) |
O1—H1 | 0.8200 | C10—H10 | 0.9300 |
C1—C6 | 1.393 (3) | C11—C12 | 1.409 (4) |
C1—C2 | 1.414 (3) | C11—H11 | 0.9300 |
C1—C7 | 1.470 (3) | C12—C13 | 1.380 (4) |
C2—C3 | 1.403 (3) | C12—H12 | 0.9300 |
C3—C4 | 1.375 (3) | C13—H13 | 0.9300 |
C7—N1—C8 | 106.74 (18) | C1—C6—H6 | 119.6 |
C7—N1—H1A | 125 (2) | N2—C7—N1 | 112.43 (19) |
C8—N1—H1A | 128 (2) | N2—C7—C1 | 122.80 (19) |
C7—N2—C9 | 106.08 (18) | N1—C7—C1 | 124.77 (19) |
C2—O1—H1 | 109.5 | C13—C8—N1 | 132.1 (2) |
C6—C1—C2 | 119.70 (19) | C13—C8—C9 | 122.2 (2) |
C6—C1—C7 | 121.93 (19) | N1—C8—C9 | 105.67 (19) |
C2—C1—C7 | 118.35 (19) | N2—C9—C10 | 130.6 (2) |
O1—C2—C3 | 118.9 (2) | N2—C9—C8 | 109.08 (19) |
O1—C2—C1 | 123.35 (19) | C10—C9—C8 | 120.3 (2) |
C3—C2—C1 | 117.71 (19) | C11—C10—C9 | 117.7 (2) |
C4—C3—C2 | 122.2 (2) | C11—C10—H10 | 121.1 |
C4—C3—Cl1 | 119.11 (17) | C9—C10—H10 | 121.1 |
C2—C3—Cl1 | 118.67 (17) | C10—C11—C12 | 121.4 (2) |
C3—C4—C5 | 119.1 (2) | C10—C11—H11 | 119.3 |
C3—C4—H4 | 120.4 | C12—C11—H11 | 119.3 |
C5—C4—H4 | 120.4 | C13—C12—C11 | 121.9 (2) |
C6—C5—C4 | 120.4 (2) | C13—C12—H12 | 119.0 |
C6—C5—Cl2 | 120.51 (18) | C11—C12—H12 | 119.0 |
C4—C5—Cl2 | 119.04 (17) | C12—C13—C8 | 116.5 (2) |
C5—C6—C1 | 120.8 (2) | C12—C13—H13 | 121.8 |
C5—C6—H6 | 119.6 | C8—C13—H13 | 121.8 |
D—H···A | D—H | H···A | D···A | D—H···A |
O1—H1···N2 | 0.82 | 1.85 | 2.582 (2) | 148 |
N1—H1A···O1i | 0.90 (3) | 2.39 (2) | 3.145 (2) | 143 (3) |
Symmetry code: (i) x, −y+3/2, z−1/2. |
Experimental details
Crystal data | |
Chemical formula | C13H8Cl2N2O |
Mr | 279.11 |
Crystal system, space group | Monoclinic, P21/c |
Temperature (K) | 298 |
a, b, c (Å) | 11.850 (3), 7.446 (3), 13.947 (2) |
β (°) | 104.261 (3) |
V (Å3) | 1192.7 (6) |
Z | 4 |
Radiation type | Mo Kα |
µ (mm−1) | 0.53 |
Crystal size (mm) | 0.21 × 0.20 × 0.18 |
Data collection | |
Diffractometer | Bruker SMART CCD area-detector |
Absorption correction | Multi-scan (SADABS; Bruker, 2001) |
Tmin, Tmax | 0.897, 0.911 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 6117, 2562, 1810 |
Rint | 0.035 |
(sin θ/λ)max (Å−1) | 0.639 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.042, 0.127, 1.03 |
No. of reflections | 2562 |
No. of parameters | 167 |
No. of restraints | 1 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement |
Δρmax, Δρmin (e Å−3) | 0.26, −0.23 |
Computer programs: SMART (Bruker, 2007), SAINT (Bruker, 2007), SHELXS97 (Sheldrick, 2008), SHELXL97 (Sheldrick, 2008), SHELXTL (Sheldrick, 2008).
D—H···A | D—H | H···A | D···A | D—H···A |
O1—H1···N2 | 0.82 | 1.85 | 2.582 (2) | 148 |
N1—H1A···O1i | 0.90 (3) | 2.39 (2) | 3.145 (2) | 143 (3) |
Symmetry code: (i) x, −y+3/2, z−1/2. |
Acknowledgements
The author acknowledges Hunan Yongzhou Vocational College for supporting this work.
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. CSD CrossRef Web of Science Google Scholar
Bruker (2001). SADABS. Bruker AXS Inc., Madison, Wisconsin, USA. Google Scholar
Bruker (2007). SMART and SAINT. Bruker AXS Inc., Madison, Wisconsin, USA. Google Scholar
Hamaker, C. G., Maryashina, O. S., Daley, D. K. & Wadler, A. L. (2010). J. Chem. Crystallogr. 40, 34–39. Web of Science CSD CrossRef CAS Google Scholar
Jeseentharani, V., Selvakumar, J., Dayalan, A., Varghese, B. & Nagaraja, K. S. (2010). J. Mol. Struct. 966, 122–128. Web of Science CSD CrossRef CAS Google Scholar
Khalaji, A. D., Chermahini, A. N., Fejfarova, K. & Dusek, M. (2010). Struct. Chem. 21, 153–157. Web of Science CSD CrossRef CAS Google Scholar
Sheldrick, G. M. (2008). Acta Cryst. A64, 112–122. Web of Science CrossRef CAS IUCr Journals Google Scholar
Tanaka, K., Shimoura, R. & Caira, M. R. (2010). Tetrahedron Lett. 51, 449–452. Web of Science CSD CrossRef CAS Google Scholar
Tunç, T., Sarı, M., Sadıkoğlu, M. & Büyükgüngör, O. (2009). J. Chem. Crystallogr. 39, 672–676. Google Scholar
This is an open-access article distributed under the terms of the Creative Commons Attribution (CC-BY) Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original authors and source are cited.
The condensation reaction of aldehydes with primary amines readily leads to the formation of Schiff bases bearing a C=N double bond (Jeseentharani et al., 2010; Hamaker et al., 2010; Tanaka et al., 2010; Tunç et al., 2009; Khalaji et al., 2010). Herein, we report on the structure of the title compound, the unexpected result of the Schiff base condensation reaction of 3,5-dichloro-2-hydroxybenzaldehyde with 1,2-diaminobenzene.
The title molecule (Fig. 1) is essentially planar, with the mean deviation from the plane of all the non-H atoms being 0.037 (2) Å. There is an intramolecular O—H···N hydrogen bond (Table 1) in the molecule, as shown in Fig. 1. All the bond lengths are within normal ranges (Allen et al., 1987).
In the crystal symmetry related molecules are linked through an intermolecular N—H···O hydrogen bond to form polymer chains propagating in [001] (Table 1 and Fig. 2). These chains are linked via π–π stacking interactions involving rings N1/N2/C7-C9 and C1-C6 [symmetry operation: 2-x, 2-y, 1-y], with a centroid-to-centroid distance of 3.535 (2) Å, and rings C1-C6 and C8-C13 [symmetry code: 2-x, 1-y, 1-z], with a centroid-to-centroid distance of 3.724 (2)Å.