organic compounds
2-(1,3-Thiazol-4-yl)benzimidazolium nitrate monohydrate
aFacultad de Química, Universidad Nacional Autónoma de México, 04510 México DF, México
*Correspondence e-mail: blum@servidor.unam.mx
In the title compound, C10H8N3S+·NO3−·H2O, one of the N atoms of the benzimidazole unit is protonated, unlike than that in the thiazole group. This protonation leads to equalization of the bond angles at the two N atoms of the benzimidazole group. The benzimidazole and thiazole systems are almost coplanar, forming a dihedral angle of 0.5 (2)°. In the crystal, the nitrate anion and water molecule bridge the thiabendazolium cations through N—H⋯O and O—H⋯O hydrogen bonds, leading to a supramolecular network based on an infinite one-dimensional chain using [001] as base vector.
Related literature
For the antiviral action and anthelmintic activity of substituted benzimidazoles, see: Goodgame et al. (1985). Related structures have been reported: thiabendazole (Trus & Marsh, 1973); thiabendazolium nitrate (Murugesan et al., 1998; Devereux et al., 2004); thiabendazolium perchlorate (Stanley et al., 2002); thiabendazolium halide dihydrates (Prabakaran et al., 2000). For structures of transition metal complexes bearing thiabendazole as ligand, see: Kowala & Wunderlich (1973); Udupa & Krebs (1979); Rong et al. (1991).
Experimental
Crystal data
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Refinement
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Data collection: CrysAlis CCD (Oxford Diffraction, 2009); cell CrysAlis RED (Oxford Diffraction, 2009); data reduction: CrysAlis RED; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: ORTEP-3 for Windows (Farrugia, 1997); software used to prepare material for publication: WinGX (Farrugia, 1999).
Supporting information
10.1107/S1600536810008433/bh2274sup1.cif
contains datablocks I, global. DOI:Structure factors: contains datablock I. DOI: 10.1107/S1600536810008433/bh2274Isup2.hkl
The reaction mixture of 2-(4-thiazolyl)benzimidazole (0.3686 g, 1.83 mmol) with [Fe(DMSO)6]NO3 (0.3549 g, 0.5 mmol) in acetonitrile (60 ml) was refluxed for 10 h. It yielded pale-yellow crystals of (C10H8N3S)(NO3).H2O as a byproduct when the solution was left to stand at room temperature for a couple of days.
H atoms bonded to N and O atoms were located in difference maps and were refined with free coordinates and Uiso(H) = 1.5Ueq(N) and 1.2Ueq(O). H atoms attached to C atoms were placed in geometrically idealized positions and refined as riding on their parent atoms, with C—H = 0.93 Å and Uiso(H) = 1.2Ueq(C).
Data collection: CrysAlis CCD (Oxford Diffraction, 2009); cell
CrysAlis PRO RED (Oxford Diffraction, 2009); data reduction: CrysAlis PRO RED(Oxford Diffraction, 2009); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: ORTEP-3 for Windows (Farrugia, 1997); software used to prepare material for publication: WinGX (Farrugia, 1999).Fig. 1. The molecular structure of the title salt, with atom labels and 30% probability displacement ellipsoids for non-H atoms. |
C10H8N3S+·NO3−·H2O | F(000) = 584 |
Mr = 282.28 | Dx = 1.532 Mg m−3 |
Monoclinic, P21/c | Mo Kα radiation, λ = 0.71073 Å |
Hall symbol: -P 2ybc | Cell parameters from 3277 reflections |
a = 7.6140 (3) Å | θ = 3.2–26.0° |
b = 16.3130 (5) Å | µ = 0.28 mm−1 |
c = 10.0990 (3) Å | T = 298 K |
β = 102.731 (4)° | Prism, pale yellow |
V = 1223.53 (7) Å3 | 0.54 × 0.39 × 0.26 mm |
Z = 4 |
Oxford Diffraction Xcalibur diffractometer with an Atlas (Gemini Mo) detector | 2426 independent reflections |
Radiation source: X-ray | 1859 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.017 |
Detector resolution: 10.4685 pixels mm-1 | θmax = 26.1°, θmin = 3.2° |
ω scans | h = −9→7 |
Absorption correction: multi-scan (CrysAlis RED; Oxford Diffraction, 2009) | k = −19→20 |
Tmin = 0.920, Tmax = 0.952 | l = −12→10 |
5590 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)] = 0.036 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.100 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.08 | w = 1/[σ2(Fo2) + (0.0565P)2 + 0.057P] where P = (Fo2 + 2Fc2)/3 |
2426 reflections | (Δ/σ)max < 0.001 |
184 parameters | Δρmax = 0.23 e Å−3 |
0 restraints | Δρmin = −0.21 e Å−3 |
0 constraints |
C10H8N3S+·NO3−·H2O | V = 1223.53 (7) Å3 |
Mr = 282.28 | Z = 4 |
Monoclinic, P21/c | Mo Kα radiation |
a = 7.6140 (3) Å | µ = 0.28 mm−1 |
b = 16.3130 (5) Å | T = 298 K |
c = 10.0990 (3) Å | 0.54 × 0.39 × 0.26 mm |
β = 102.731 (4)° |
Oxford Diffraction Xcalibur diffractometer with an Atlas (Gemini Mo) detector | 2426 independent reflections |
Absorption correction: multi-scan (CrysAlis RED; Oxford Diffraction, 2009) | 1859 reflections with I > 2σ(I) |
Tmin = 0.920, Tmax = 0.952 | Rint = 0.017 |
5590 measured reflections |
R[F2 > 2σ(F2)] = 0.036 | 0 restraints |
wR(F2) = 0.100 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.08 | Δρmax = 0.23 e Å−3 |
2426 reflections | Δρmin = −0.21 e Å−3 |
184 parameters |
x | y | z | Uiso*/Ueq | ||
C2 | 0.7417 (2) | −0.01688 (10) | 0.01259 (16) | 0.0385 (4) | |
C4 | 0.8456 (2) | 0.11013 (10) | 0.02130 (18) | 0.0416 (4) | |
C5 | 0.8891 (3) | 0.18937 (11) | −0.0082 (2) | 0.0542 (5) | |
H5 | 0.8578 | 0.2102 | −0.096 | 0.065* | |
C6 | 0.9813 (3) | 0.23603 (12) | 0.0988 (2) | 0.0606 (5) | |
H6 | 1.0132 | 0.2897 | 0.084 | 0.073* | |
C7 | 1.0266 (2) | 0.20260 (12) | 0.2293 (2) | 0.0576 (5) | |
H7 | 1.0923 | 0.2346 | 0.2992 | 0.069* | |
C8 | 0.9784 (2) | 0.12463 (12) | 0.25917 (19) | 0.0517 (5) | |
H8 | 1.0062 | 0.1042 | 0.3473 | 0.062* | |
C9 | 0.8865 (2) | 0.07819 (10) | 0.15118 (16) | 0.0416 (4) | |
C10 | 0.6544 (2) | −0.09278 (9) | −0.03838 (16) | 0.0387 (4) | |
C11 | 0.5761 (2) | −0.10865 (11) | −0.17031 (17) | 0.0467 (4) | |
H11 | 0.5695 | −0.0718 | −0.2415 | 0.056* | |
C13 | 0.5667 (3) | −0.21780 (11) | −0.01579 (18) | 0.0507 (4) | |
H13 | 0.5495 | −0.2667 | 0.027 | 0.061* | |
N1 | 0.81909 (19) | −0.00164 (8) | 0.14122 (14) | 0.0403 (3) | |
N3 | 0.7559 (2) | 0.04857 (9) | −0.06229 (15) | 0.0434 (4) | |
N14 | 0.6484 (2) | −0.15582 (9) | 0.05111 (15) | 0.0487 (4) | |
N15 | 0.6705 (2) | 0.07673 (9) | 0.58671 (15) | 0.0502 (4) | |
O1W | 0.2195 (2) | 0.07887 (10) | 0.62504 (15) | 0.0621 (4) | |
O16 | 0.7817 (3) | 0.02340 (12) | 0.61835 (19) | 0.1061 (7) | |
O17 | 0.6049 (2) | 0.10779 (9) | 0.67836 (14) | 0.0724 (4) | |
O18 | 0.6223 (3) | 0.09795 (10) | 0.47009 (14) | 0.0989 (6) | |
S12 | 0.49270 (6) | −0.20485 (3) | −0.18646 (4) | 0.05076 (18) | |
H2D | 0.329 (3) | 0.0937 (14) | 0.647 (2) | 0.076* | |
H1D | 0.205 (3) | 0.0427 (15) | 0.574 (2) | 0.076* | |
H1N | 0.814 (3) | −0.0313 (12) | 0.210 (2) | 0.061* | |
H3N | 0.722 (3) | 0.0536 (13) | −0.145 (2) | 0.061* |
U11 | U22 | U33 | U12 | U13 | U23 | |
C2 | 0.0382 (9) | 0.0415 (9) | 0.0363 (9) | 0.0061 (7) | 0.0094 (7) | 0.0024 (7) |
C4 | 0.0385 (9) | 0.0433 (9) | 0.0447 (9) | −0.0003 (7) | 0.0131 (7) | 0.0001 (7) |
C5 | 0.0536 (11) | 0.0513 (11) | 0.0609 (12) | −0.0058 (8) | 0.0193 (10) | 0.0072 (9) |
C6 | 0.0486 (11) | 0.0507 (11) | 0.0877 (16) | −0.0080 (9) | 0.0261 (11) | −0.0116 (11) |
C7 | 0.0421 (10) | 0.0577 (12) | 0.0726 (13) | −0.0018 (8) | 0.0119 (9) | −0.0247 (10) |
C8 | 0.0462 (10) | 0.0564 (11) | 0.0496 (10) | 0.0067 (8) | 0.0041 (8) | −0.0116 (9) |
C9 | 0.0379 (9) | 0.0435 (9) | 0.0437 (9) | 0.0060 (7) | 0.0100 (7) | −0.0020 (8) |
C10 | 0.0369 (9) | 0.0413 (9) | 0.0385 (9) | 0.0043 (7) | 0.0098 (7) | 0.0007 (7) |
C11 | 0.0543 (11) | 0.0477 (10) | 0.0371 (9) | 0.0004 (8) | 0.0080 (8) | 0.0035 (7) |
C13 | 0.0614 (11) | 0.0457 (10) | 0.0452 (10) | −0.0069 (8) | 0.0124 (9) | 0.0037 (8) |
N1 | 0.0464 (8) | 0.0403 (8) | 0.0337 (7) | 0.0064 (6) | 0.0076 (6) | 0.0026 (6) |
N3 | 0.0473 (9) | 0.0488 (8) | 0.0340 (7) | −0.0021 (6) | 0.0086 (7) | 0.0057 (7) |
N14 | 0.0591 (9) | 0.0464 (8) | 0.0390 (8) | −0.0046 (7) | 0.0070 (7) | 0.0044 (7) |
N15 | 0.0613 (10) | 0.0447 (8) | 0.0414 (8) | 0.0024 (7) | 0.0044 (7) | 0.0033 (7) |
O1W | 0.0733 (10) | 0.0623 (9) | 0.0512 (8) | 0.0057 (8) | 0.0149 (8) | 0.0038 (6) |
O16 | 0.1230 (16) | 0.1025 (14) | 0.0874 (12) | 0.0633 (12) | 0.0118 (11) | 0.0130 (10) |
O17 | 0.0828 (11) | 0.0859 (11) | 0.0469 (8) | 0.0184 (8) | 0.0104 (7) | −0.0106 (7) |
O18 | 0.1616 (18) | 0.0918 (12) | 0.0357 (8) | 0.0366 (11) | 0.0057 (10) | 0.0079 (7) |
S12 | 0.0541 (3) | 0.0533 (3) | 0.0437 (3) | −0.0063 (2) | 0.0082 (2) | −0.0065 (2) |
N1—C2 | 1.326 (2) | C8—C9 | 1.385 (2) |
N1—C9 | 1.395 (2) | C8—H8 | 0.93 |
N3—C2 | 1.327 (2) | C10—C11 | 1.359 (2) |
N3—C4 | 1.390 (2) | C11—S12 | 1.6874 (18) |
N14—C10 | 1.376 (2) | C11—H11 | 0.93 |
N14—C13 | 1.296 (2) | C13—S12 | 1.7045 (19) |
C2—C10 | 1.445 (2) | C13—H13 | 0.93 |
C4—C9 | 1.382 (2) | N1—H1N | 0.85 (2) |
C4—C5 | 1.383 (2) | N3—H3N | 0.82 (2) |
C5—C6 | 1.380 (3) | N15—O18 | 1.205 (2) |
C5—H5 | 0.93 | N15—O16 | 1.207 (2) |
C6—C7 | 1.398 (3) | N15—O17 | 1.2516 (19) |
C6—H6 | 0.93 | O1W—H2D | 0.85 (2) |
C7—C8 | 1.375 (3) | O1W—H1D | 0.78 (2) |
C7—H7 | 0.93 | ||
C2—N1—C9 | 108.82 (13) | C7—C8—H8 | 121.7 |
C2—N1—H1N | 126.9 (14) | C9—C8—H8 | 121.7 |
C9—N1—H1N | 123.4 (13) | C4—C9—C8 | 120.69 (16) |
C2—N3—C4 | 109.03 (14) | C4—C9—N1 | 106.34 (14) |
C2—N3—H3N | 127.8 (15) | C8—C9—N1 | 132.97 (16) |
C4—N3—H3N | 123.2 (15) | C11—C10—N14 | 115.50 (15) |
N1—C2—N3 | 109.45 (15) | C11—C10—C2 | 125.47 (15) |
N1—C2—C10 | 125.43 (14) | N14—C10—C2 | 119.03 (14) |
N3—C2—C10 | 125.13 (15) | C10—C11—S12 | 110.26 (13) |
C9—C4—C5 | 122.87 (17) | C10—C11—H11 | 124.9 |
C9—C4—N3 | 106.36 (14) | S12—C11—H11 | 124.9 |
C5—C4—N3 | 130.76 (16) | N14—C13—S12 | 116.36 (14) |
C6—C5—C4 | 116.81 (19) | N14—C13—H13 | 121.8 |
C6—C5—H5 | 121.6 | S12—C13—H13 | 121.8 |
C4—C5—H5 | 121.6 | C13—N14—C10 | 108.79 (15) |
C5—C6—C7 | 120.04 (18) | O18—N15—O16 | 120.71 (18) |
C5—C6—H6 | 120 | O18—N15—O17 | 121.43 (17) |
C7—C6—H6 | 120 | O16—N15—O17 | 117.84 (16) |
C8—C7—C6 | 123.02 (19) | O18—N15—O17 | 121.43 (17) |
C8—C7—H7 | 118.5 | O16—N15—O17 | 117.84 (16) |
C6—C7—H7 | 118.5 | H2D—O1W—H1D | 112 (2) |
C7—C8—C9 | 116.52 (18) | C11—S12—C13 | 89.08 (8) |
C9—C4—C5—C6 | 1.6 (3) | N14—C10—C11—S12 | −0.39 (19) |
N3—C4—C5—C6 | −179.56 (17) | C2—C10—C11—S12 | 179.16 (13) |
C4—C5—C6—C7 | 0.2 (3) | N3—C2—N1—C9 | 0.41 (18) |
C5—C6—C7—C8 | −2.2 (3) | C10—C2—N1—C9 | −179.28 (14) |
C6—C7—C8—C9 | 2.3 (3) | C4—C9—N1—C2 | −0.09 (17) |
C5—C4—C9—C8 | −1.5 (3) | C8—C9—N1—C2 | −179.72 (17) |
N3—C4—C9—C8 | 179.44 (14) | N1—C2—N3—C4 | −0.58 (18) |
C5—C4—C9—N1 | 178.82 (15) | C10—C2—N3—C4 | 179.11 (14) |
N3—C4—C9—N1 | −0.25 (17) | C9—C4—N3—C2 | 0.51 (18) |
C7—C8—C9—C4 | −0.5 (2) | C5—C4—N3—C2 | −178.47 (18) |
C7—C8—C9—N1 | 179.10 (16) | S12—C13—N14—C10 | −0.2 (2) |
N1—C2—C10—C11 | −179.51 (16) | C11—C10—N14—C13 | 0.4 (2) |
N3—C2—C10—C11 | 0.8 (3) | C2—C10—N14—C13 | −179.21 (15) |
N1—C2—C10—N14 | 0.0 (2) | C10—C11—S12—C13 | 0.22 (14) |
N3—C2—C10—N14 | −179.62 (15) | N14—C13—S12—C11 | −0.01 (15) |
D—H···A | D—H | H···A | D···A | D—H···A |
O1W—H2D···O17 | 0.85 (2) | 2.06 (2) | 2.903 (2) | 168 (2) |
O1W—H1D···O16i | 0.78 (2) | 2.24 (3) | 2.969 (2) | 156 (2) |
N1—H1N···O1Wi | 0.85 (2) | 1.91 (2) | 2.748 (2) | 168.5 (18) |
N3—H3N···O16ii | 0.82 (2) | 2.58 (2) | 3.300 (2) | 147.5 (18) |
N3—H3N···O17ii | 0.82 (2) | 2.02 (2) | 2.791 (2) | 157 (2) |
Symmetry codes: (i) −x+1, −y, −z+1; (ii) x, y, z−1. |
Experimental details
Crystal data | |
Chemical formula | C10H8N3S+·NO3−·H2O |
Mr | 282.28 |
Crystal system, space group | Monoclinic, P21/c |
Temperature (K) | 298 |
a, b, c (Å) | 7.6140 (3), 16.3130 (5), 10.0990 (3) |
β (°) | 102.731 (4) |
V (Å3) | 1223.53 (7) |
Z | 4 |
Radiation type | Mo Kα |
µ (mm−1) | 0.28 |
Crystal size (mm) | 0.54 × 0.39 × 0.26 |
Data collection | |
Diffractometer | Oxford Diffraction Xcalibur diffractometer with an Atlas (Gemini Mo) detector |
Absorption correction | Multi-scan (CrysAlis RED; Oxford Diffraction, 2009) |
Tmin, Tmax | 0.920, 0.952 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 5590, 2426, 1859 |
Rint | 0.017 |
(sin θ/λ)max (Å−1) | 0.618 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.036, 0.100, 1.08 |
No. of reflections | 2426 |
No. of parameters | 184 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement |
Δρmax, Δρmin (e Å−3) | 0.23, −0.21 |
Computer programs: CrysAlis CCD (Oxford Diffraction, 2009), CrysAlis PRO RED (Oxford Diffraction, 2009), CrysAlis PRO RED(Oxford Diffraction, 2009), SHELXS97 (Sheldrick, 2008), SHELXL97 (Sheldrick, 2008), ORTEP-3 for Windows (Farrugia, 1997), WinGX (Farrugia, 1999).
N1—C2 | 1.326 (2) | N3—C4 | 1.390 (2) |
N1—C9 | 1.395 (2) | N14—C10 | 1.376 (2) |
N3—C2 | 1.327 (2) | N14—C13 | 1.296 (2) |
C2—N1—C9 | 108.82 (13) | C13—N14—C10 | 108.79 (15) |
C2—N3—C4 | 109.03 (14) |
D—H···A | D—H | H···A | D···A | D—H···A |
O1W—H2D···O17 | 0.85 (2) | 2.06 (2) | 2.903 (2) | 168 (2) |
O1W—H1D···O16i | 0.78 (2) | 2.24 (3) | 2.969 (2) | 156 (2) |
N1—H1N···O1Wi | 0.85 (2) | 1.91 (2) | 2.748 (2) | 168.5 (18) |
N3—H3N···O16ii | 0.82 (2) | 2.58 (2) | 3.300 (2) | 147.5 (18) |
N3—H3N···O17ii | 0.82 (2) | 2.02 (2) | 2.791 (2) | 157 (2) |
Symmetry codes: (i) −x+1, −y, −z+1; (ii) x, y, z−1. |
Acknowledgements
The authors thank the project PAPIIT UNAM-DGAPA for support via project No. IN206707 and CONACyT project VI-060894 CB-2006–1.
References
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Substituted benzimidazoles show antiviral action and anthelmintic activity. This has been attributed to their metal-chelating ability (Goodgame et al., 1985). Thiabendazole is a broad-spectrum anthelmintic compound useful in the treatment of human and animal parasitic diseases.
The crystal structures of thiabendazole (Trus & Marsh, 1973), thiabendazolium nitrate (Murugesan et al., 1998; Devereux et al., 2004), thiabendazolium perchlorate (Stanley et al., 2002), thiabendazolium halide dihydrates (Prabakaran et al., 2000), and its complexes with cobalt (Kowala & Wunderlich, 1973), copper (Udupa & Krebs, 1979) and platinum (Rong et al., 1991) have been reported. The present paper deals with the crystal structure of a protonated thiabendazole moiety, namely, thiabendazolium nitrate hydrate.
The asymmetric unit of the title salt contains one protonated 2-(4-thiazolyl)-1H-benzimidazol-1-ium cation, one nitrate anion and one water molecule, shown in Fig. 1. The cation is protonated on the benzimidazole iminic nitrogen atom, resulting in delocalization of the double bond over the N—C—N fragment, with C—N distances of 1.326 (2) and 1.327 (2) Å (Table 1), in contrast to the benzimidazole group in the crystal structure of free thiabendazole, where the two bond lengths are different (Trus & Marsh, 1973).
The C—C bond connecting the two ring systems has a length of 1.445 (2) Å, which is the same bond length, within experimental error, as that in neutral thiabendazole. This value suggests appreciable delocalization across this bond (Prabakaran et al., 2000).
The benzimidazole and thiazole systems are coplanar, the dihedral angle between them is 0.5 (2)°.
The thiabendazole cation is involved in a pair of N—H···O, O—H···O hydrogen bonds [N1···O1w: 2.748 (2) Å and N3···O17: 2.791 (2) Å], while the nitrate anion and water molecule display hydrogen bonding (Table 2), which lead to an infinite one-dimensional chain with base vector [0 0 1].