organic compounds
Benzo[4,5]imidazo[2,1-b]thiazole-2-carbaldehyde
aDepartment of Chemistry, M. S. Ramaiah Institute of Technology, Bangalore 560 054, Karnataka, India, bVisvesvaraya Technological University, Belagavi 590 018, India, and cSolid State and Structural Chemistry Unit, Indian Institute of Science, Bangalore 560 012, India
*Correspondence e-mail: muralikp21@gmail.com
The title compound, C10H6N2OS, is planar, with an r.m.s. deviation of 0.021 Å for the non-H atoms. In the crystal, molecules are linked via a pair of C—H⋯O hydrogen bonds, forming inversion dimers with an R22(6) ring motif. The molecules stack up the c axis and are linked by offset π–π interactions [shortest inter-centroid distance = 3.647 (2) Å], forming undulating layers parallel to (100).
Keywords: crystal structure; benzimidazole; carbaldehyde; C—H⋯O hydrogen bonding; offset π–π interactions.
CCDC reference: 1442202
Structure description
Substituted and unsubstituted benzimidazole derivatives occupy an important position among medications due to their vast range of biological activities, such as immunomodulator (Fenichel et al., 1980; Dillman et al., 1992) anti-ulcer, anticancer (Abdel-Aziz et al., 2010), antifungal (Pattanaik et al., 1998), antibacterial (Oh et al., 1995), antidiabetic (El-Shorbagi et al., 2001) and fungicidal (Chaudhary et al., 1970). Benzimidazole derivatives are also used as building blocks for the synthesis of nonpeptide antagonists of angiotensin II receptor (Abdel-Aziz et al., 2010; Chaudhary et al., 1970). In view of the current interest in designing new benzimidazole derivatives, we have synthesized benzo[4,5]imidazo[2,1-b]thiazole-2-carbaldehyde and report herein its crystal structure.
The title compound (Fig. 1) is planar, with an r.m.s. deviation of 0.021 Å for all the non-H atoms [maximum deviation = 0.032 (4) Å for atom C3]. The bond lengths and angles are close to those observed for the similar compound 1-(6-bromo-3-methyl-1,3-thiazolo[3,2-a]benzimidazol-2-yl)ethanone (Abdel-Aziz et al., 2011).
In the crystal of the title compound, molecules are linked by a pair of C—H⋯O hydrogen bonds, forming inversion dimers with an (6) ring motif (Table 1 and Fig. 2). The molecules stack up the c axis and are linked by slipped parallel π–π interactions, involving inversion-related molecules, forming undulating layers parallel to the bc plane (Fig. 2). The shortest interaction is Cg1⋯Cg2ii of 3.647 (2) Å, with an interplanar distance of 3.417 (1) Å and a slippage of 1.239 Å [Cg1 and Cg2 are the centroids of the S1/N2/C2/C3/C10 and N1/N2/C4/C9/C10 rings, respectively; symmetry code: (ii) −x, −y, −z].
Synthesis and crystallization
To synthesize the title compound, a number of attempts were made with different bases, like K2CO3, NaOH, KOH, triethylamine and ACONa, for the nucleophilic reaction in different solvents, like EtOH, MeOH, CH3CN and dimethylformamide (DMF). Success was achieved with the following procedure. To a stirred solution of 2-mercaptobenzimidazole (250 mg, 0.0016 mol) in dry acetone, an acetone solution of 2-bromomalonaldehyde (252 mg, 0.0016 mol) was added dropwise with stirring over a period of 60 min. After evaporating the solvent, ice-cold water was added and the mixture neutralized with ammonium hydroxide. The reaction was monitored by thin-layer-chromatography (TLC). The pale-coloured solid which was produced was collected by filtration, washed several times with ice-cold water and petroleum ether, and finally dried in vacuo. Colourless block-shaped crystals were obtained by slow evaporation of a solution in water/DMF (1:9 v/v).
Refinement
Crystal data, data collection and structure .
details are summarized in Table 2Structural data
CCDC reference: 1442202
10.1107/S2414314616007781/su4045sup1.cif
contains datablocks global, I. DOI:Structure factors: contains datablock I. DOI: 10.1107/S2414314616007781/su4045Isup2.hkl
Supporting information file. DOI: 10.1107/S2414314616007781/su4045Isup3.cml
To synthesize the title compound, a number of attempts were made with different bases, like K2CO3, NaOH, KOH, triethylamine and ACONa, for the nucleophilic reaction in different solvents, like EtOH, MeOH, CH3CN and dimethylformamide (DMF). Success was achieved with the following procedure. To a stirred solution of 2-mercaptobenzimidazole (250 mg, 0.0016 mol) in dry acetone, an acetone solution of 2-bromomalonaldehyde (252 mg, 0.0016 mol) was added dropwise with stirring over a period of 60 min. After evaporating the solvent, ice-cold water was added and the mixture neutralized with ammonium hydroxide. The reaction was monitored by thin-layer-chromatography (TLC). The pale-coloured solid which was produced was collected by filtration, washed several times with ice-cold water and petroleum ether, and finally dried in vacuo. Colourless block-shaped crystals were obtained by slow evaporation of a solution in water/DMF (1:9 v/v).
Substituted and unsubstituted benzimidazole derivatives occupy an important position among medications due to their vast range of biological activities, such as immunomodulator (Fenichel et al., 1980; Dillman et al., 1992) antiulcer, anticancer (Abdel-Aziz et al., 2010), antifungal (Pattanaik et al., 1998), antibacterial (Oh et al., 1995), antidiabetic (El-Shorbagi et al., 2001) and fungicidal (Chaudhary et al., 1970). Benzimidazole derivatives are also used as building blocks for the synthesis of nonpeptide antagonists of angiotensin II receptor (Abdel-Aziz et al., 2010; Chaudhary et al., 1970). In view of the current interest in designing new benzimidazole derivatives, we have synthesized the title compound benzo[4,5]imidazo[2,1-b]thiazole-2-carbaldehyde and report herein on its crystal structure.
The title compound (Fig. 1) is planar, with an r.m.s. deviation of 0.021 Å for all the non-H atoms [maximum deviation = 0.032 (4) Å for atom C3]. The bond lengths and angles are close to those observed for the similar compound, 1-(6-bromo-3-methyl-1,3-thiazolo[3,2-a]benzimidazol-2-yl)ethanone (Abdel-Aziz et al., 2011).
In the crystal of the title compound, molecules are linked by a pair of C—H···O hydrogen bonds, forming inversion dimers with an R22(6) ring motif (Table 1 and Fig. 2). The molecules stack up the c axis and are linked by slipped parallel π–π interactions, involving inversion-related molecules, forming undulating layers parallel to the bc plane (Fig 2). The shortest interaction is Cg1···Cg2ii = 3.647 (2) Å, interplanar distance = 3.417 (1) Å and slippage 1.239 Å; Cg1 and Cg2 are the centroids of the S1/N2/C2/C3/C10 and N1/N2/C4/C9/C10 rings [symmetry code: (ii) -x, -y, -z].
Data collection: APEX2 (Bruker, 2012); cell
SAINT (Bruker, 2012); data reduction: SAINT (Bruker, 2012); program(s) used to solve structure: olex2.solve (Bourhis et al., 2015); program(s) used to refine structure: SHELXL2014 (Sheldrick, 2015); molecular graphics: OLEX2 (Dolomanov et al., 2009) and Mercury (Macrae et al., 2008); software used to prepare material for publication: OLEX2 (Dolomanov et al., 2009).Fig. 1. The molecular structure of the title compound, showing the atom labelling. Displacement ellipsoids are drawn at the 50% probability level. | |
Fig. 2. A view along the c axis of the crystal packing of the title compound. Hydrogen bonds are shown as dashed lines (see Table 1) and, for clarity, only the H atom (grey ball) involved in this interaction has been included. |
C10H6N2OS | F(000) = 416 |
Mr = 202.23 | Dx = 1.527 Mg m−3 |
Monoclinic, P21/c | Mo Kα radiation, λ = 0.71073 Å |
a = 5.6514 (16) Å | Cell parameters from 563 reflections |
b = 21.220 (7) Å | θ = 5–25.0° |
c = 7.381 (2) Å | µ = 0.33 mm−1 |
β = 96.473 (17)° | T = 298 K |
V = 879.5 (5) Å3 | Block, colourless |
Z = 4 | 0.24 × 0.23 × 0.22 mm |
Bruker SMART APEXII area-detector diffractometer | 2357 independent reflections |
Radiation source: microfocus sealed X-ray tube, Incoatec Iµs | 935 reflections with I > 2σ(I) |
Mirror optics monochromator | Rint = 0.129 |
Detector resolution: 7.9 pixels mm-1 | θmax = 30.1°, θmin = 1.9° |
ω and φ scans | h = −6→7 |
Absorption correction: multi-scan (SADABS; Bruker, 2012) | k = −29→29 |
Tmin = 0.584, Tmax = 0.746 | l = −10→10 |
15536 measured reflections |
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)] = 0.058 | Hydrogen site location: mixed |
wR(F2) = 0.150 | H atoms treated by a mixture of independent and constrained refinement |
S = 0.91 | w = 1/[σ2(Fo2) + (0.0593P)2] where P = (Fo2 + 2Fc2)/3 |
2357 reflections | (Δ/σ)max < 0.001 |
131 parameters | Δρmax = 0.23 e Å−3 |
0 restraints | Δρmin = −0.35 e Å−3 |
C10H6N2OS | V = 879.5 (5) Å3 |
Mr = 202.23 | Z = 4 |
Monoclinic, P21/c | Mo Kα radiation |
a = 5.6514 (16) Å | µ = 0.33 mm−1 |
b = 21.220 (7) Å | T = 298 K |
c = 7.381 (2) Å | 0.24 × 0.23 × 0.22 mm |
β = 96.473 (17)° |
Bruker SMART APEXII area-detector diffractometer | 2357 independent reflections |
Absorption correction: multi-scan (SADABS; Bruker, 2012) | 935 reflections with I > 2σ(I) |
Tmin = 0.584, Tmax = 0.746 | Rint = 0.129 |
15536 measured reflections |
R[F2 > 2σ(F2)] = 0.058 | 0 restraints |
wR(F2) = 0.150 | H atoms treated by a mixture of independent and constrained refinement |
S = 0.91 | Δρmax = 0.23 e Å−3 |
2357 reflections | Δρmin = −0.35 e Å−3 |
131 parameters |
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. |
x | y | z | Uiso*/Ueq | ||
S1 | 0.00346 (15) | 0.35868 (4) | 0.24538 (14) | 0.0456 (3) | |
O1 | 0.2732 (5) | 0.47879 (12) | 0.3388 (4) | 0.0712 (9) | |
N1 | −0.0906 (5) | 0.22884 (13) | 0.2066 (4) | 0.0405 (7) | |
N2 | 0.2655 (4) | 0.26299 (12) | 0.3445 (4) | 0.0344 (7) | |
C1 | 0.3851 (6) | 0.43192 (18) | 0.3864 (5) | 0.0524 (10) | |
H1 | 0.5378 | 0.4367 | 0.4465 | 0.063* | |
C2 | 0.2933 (6) | 0.36898 (16) | 0.3546 (5) | 0.0386 (8) | |
C3 | 0.4060 (6) | 0.31408 (16) | 0.3987 (5) | 0.0394 (9) | |
H3 | 0.5596 | 0.3111 | 0.4583 | 0.047* | |
C4 | 0.2798 (5) | 0.19764 (15) | 0.3477 (5) | 0.0354 (8) | |
C5 | 0.4609 (6) | 0.15669 (16) | 0.4114 (5) | 0.0437 (9) | |
H5 | 0.6083 | 0.1711 | 0.4640 | 0.052* | |
C6 | 0.4101 (6) | 0.09323 (17) | 0.3922 (5) | 0.0513 (10) | |
H6 | 0.5260 | 0.0639 | 0.4339 | 0.062* | |
C7 | 0.1898 (7) | 0.0720 (2) | 0.3120 (5) | 0.0519 (10) | |
H7 | 0.147 (6) | 0.0268 (17) | 0.294 (5) | 0.066 (12)* | |
C8 | 0.0123 (6) | 0.11321 (17) | 0.2454 (5) | 0.0468 (9) | |
H8 | −0.1335 | 0.0984 | 0.1909 | 0.056* | |
C9 | 0.0572 (5) | 0.17760 (16) | 0.2619 (4) | 0.0370 (8) | |
C10 | 0.0414 (5) | 0.27784 (16) | 0.2589 (5) | 0.0402 (9) |
U11 | U22 | U33 | U12 | U13 | U23 | |
S1 | 0.0405 (5) | 0.0460 (6) | 0.0480 (6) | 0.0017 (4) | −0.0050 (4) | 0.0016 (5) |
O1 | 0.080 (2) | 0.0409 (17) | 0.087 (2) | 0.0059 (14) | −0.0140 (16) | 0.0041 (15) |
N1 | 0.0381 (15) | 0.0419 (19) | 0.0404 (18) | −0.0038 (14) | −0.0014 (13) | −0.0023 (14) |
N2 | 0.0296 (14) | 0.0401 (18) | 0.0326 (17) | −0.0034 (13) | −0.0003 (12) | −0.0016 (14) |
C1 | 0.049 (2) | 0.050 (3) | 0.055 (3) | −0.007 (2) | −0.0069 (19) | −0.007 (2) |
C2 | 0.0372 (18) | 0.042 (2) | 0.035 (2) | −0.0044 (16) | −0.0012 (15) | 0.0009 (17) |
C3 | 0.0356 (18) | 0.045 (2) | 0.037 (2) | −0.0053 (17) | 0.0011 (15) | −0.0020 (17) |
C4 | 0.0340 (18) | 0.040 (2) | 0.032 (2) | −0.0024 (16) | 0.0007 (14) | −0.0039 (17) |
C5 | 0.0357 (18) | 0.049 (2) | 0.046 (2) | 0.0009 (16) | 0.0013 (16) | 0.0043 (18) |
C6 | 0.055 (2) | 0.042 (2) | 0.057 (3) | 0.0080 (18) | 0.0087 (19) | 0.0030 (19) |
C7 | 0.057 (3) | 0.044 (3) | 0.055 (3) | −0.005 (2) | 0.009 (2) | −0.006 (2) |
C8 | 0.044 (2) | 0.053 (2) | 0.044 (2) | −0.011 (2) | 0.0066 (16) | −0.006 (2) |
C9 | 0.0359 (19) | 0.046 (2) | 0.029 (2) | −0.0055 (16) | 0.0025 (16) | −0.0020 (17) |
C10 | 0.0321 (19) | 0.050 (2) | 0.037 (2) | −0.0026 (16) | −0.0013 (16) | 0.0002 (18) |
S1—C10 | 1.730 (3) | C3—H3 | 0.9300 |
S1—C2 | 1.756 (3) | C4—C5 | 1.384 (4) |
O1—C1 | 1.210 (4) | C4—C9 | 1.409 (4) |
N1—C10 | 1.312 (4) | C5—C6 | 1.381 (5) |
N1—C9 | 1.403 (4) | C5—H5 | 0.9300 |
N2—C3 | 1.376 (4) | C6—C7 | 1.392 (5) |
N2—C10 | 1.386 (4) | C6—H6 | 0.9300 |
N2—C4 | 1.389 (4) | C7—C8 | 1.379 (5) |
C1—C2 | 1.442 (5) | C7—H7 | 0.99 (3) |
C1—H1 | 0.9300 | C8—C9 | 1.393 (4) |
C2—C3 | 1.350 (4) | C8—H8 | 0.9300 |
C10—S1—C2 | 89.64 (16) | C6—C5—H5 | 121.9 |
C10—N1—C9 | 103.2 (3) | C4—C5—H5 | 121.9 |
C3—N2—C10 | 114.9 (3) | C5—C6—C7 | 121.7 (3) |
C3—N2—C4 | 138.6 (3) | C5—C6—H6 | 119.2 |
C10—N2—C4 | 106.5 (2) | C7—C6—H6 | 119.2 |
O1—C1—C2 | 123.2 (3) | C8—C7—C6 | 121.7 (4) |
O1—C1—H1 | 118.4 | C8—C7—H7 | 114 (2) |
C2—C1—H1 | 118.4 | C6—C7—H7 | 124 (2) |
C3—C2—C1 | 127.5 (3) | C7—C8—C9 | 118.2 (3) |
C3—C2—S1 | 113.2 (3) | C7—C8—H8 | 120.9 |
C1—C2—S1 | 119.3 (3) | C9—C8—H8 | 120.9 |
C2—C3—N2 | 111.6 (3) | C8—C9—N1 | 129.6 (3) |
C2—C3—H3 | 124.2 | C8—C9—C4 | 118.7 (3) |
N2—C3—H3 | 124.2 | N1—C9—C4 | 111.6 (3) |
C5—C4—N2 | 132.2 (3) | N1—C10—N2 | 114.4 (3) |
C5—C4—C9 | 123.5 (3) | N1—C10—S1 | 134.9 (3) |
N2—C4—C9 | 104.3 (3) | N2—C10—S1 | 110.7 (2) |
C6—C5—C4 | 116.1 (3) | ||
O1—C1—C2—C3 | 178.4 (4) | C7—C8—C9—N1 | −179.9 (3) |
O1—C1—C2—S1 | −1.2 (5) | C7—C8—C9—C4 | −0.8 (5) |
C10—S1—C2—C3 | −0.7 (3) | C10—N1—C9—C8 | 179.0 (3) |
C10—S1—C2—C1 | 179.0 (3) | C10—N1—C9—C4 | −0.1 (3) |
C1—C2—C3—N2 | −178.8 (3) | C5—C4—C9—C8 | 2.4 (5) |
S1—C2—C3—N2 | 0.8 (4) | N2—C4—C9—C8 | −179.1 (3) |
C10—N2—C3—C2 | −0.5 (4) | C5—C4—C9—N1 | −178.4 (3) |
C4—N2—C3—C2 | 178.8 (3) | N2—C4—C9—N1 | 0.2 (3) |
C3—N2—C4—C5 | −1.1 (6) | C9—N1—C10—N2 | 0.1 (4) |
C10—N2—C4—C5 | 178.3 (3) | C9—N1—C10—S1 | 179.6 (3) |
C3—N2—C4—C9 | −179.4 (3) | C3—N2—C10—N1 | 179.5 (3) |
C10—N2—C4—C9 | −0.1 (3) | C4—N2—C10—N1 | 0.0 (4) |
N2—C4—C5—C6 | 179.7 (3) | C3—N2—C10—S1 | −0.1 (3) |
C9—C4—C5—C6 | −2.1 (5) | C4—N2—C10—S1 | −179.6 (2) |
C4—C5—C6—C7 | 0.5 (5) | C2—S1—C10—N1 | −179.1 (4) |
C5—C6—C7—C8 | 0.9 (5) | C2—S1—C10—N2 | 0.4 (2) |
C6—C7—C8—C9 | −0.7 (5) |
D—H···A | D—H | H···A | D···A | D—H···A |
C1—H1···O1i | 0.93 | 2.55 | 3.248 (4) | 132 |
Symmetry code: (i) −x+1, −y+1, −z+1. |
D—H···A | D—H | H···A | D···A | D—H···A |
C1—H1···O1i | 0.93 | 2.55 | 3.248 (4) | 132 |
Symmetry code: (i) −x+1, −y+1, −z+1. |
Experimental details
Crystal data | |
Chemical formula | C10H6N2OS |
Mr | 202.23 |
Crystal system, space group | Monoclinic, P21/c |
Temperature (K) | 298 |
a, b, c (Å) | 5.6514 (16), 21.220 (7), 7.381 (2) |
β (°) | 96.473 (17) |
V (Å3) | 879.5 (5) |
Z | 4 |
Radiation type | Mo Kα |
µ (mm−1) | 0.33 |
Crystal size (mm) | 0.24 × 0.23 × 0.22 |
Data collection | |
Diffractometer | Bruker SMART APEXII area-detector |
Absorption correction | Multi-scan (SADABS; Bruker, 2012) |
Tmin, Tmax | 0.584, 0.746 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 15536, 2357, 935 |
Rint | 0.129 |
(sin θ/λ)max (Å−1) | 0.705 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.058, 0.150, 0.91 |
No. of reflections | 2357 |
No. of parameters | 131 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement |
Δρmax, Δρmin (e Å−3) | 0.23, −0.35 |
Computer programs: APEX2 (Bruker, 2012), SAINT (Bruker, 2012), olex2.solve (Bourhis et al., 2015), SHELXL2014 (Sheldrick, 2015), OLEX2 (Dolomanov et al., 2009) and Mercury (Macrae et al., 2008), OLEX2 (Dolomanov et al., 2009).
Acknowledgements
The authors thank Professor T. N. Guru Row, Solid State and Structural Chemistry Unit, Indian Institute of Science, Bangalore, for data collection at the CCD facility and Professor Kandikere Ramaiah Prabhu, Department of Organic Chemistry, Indian Institute of Science, Bangalore, for kind technical support.
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