organic compounds
1,3-Bis(pyridin-2-yl)-1H-benzimidazol-3-ium tetrafluoridoborate
aInstitute of Inorganic Chemistry, University of Zürich, Winterthurerstrasse 190, 8057 Zürich, Switzerland
*Correspondence e-mail: oblacque@aci.uzh.ch
The 17H13N4+·BF4−, contains one half of the benzimidazolium cation and one half of the tetrafluoridoborate anion, with crystallographic mirror planes bisecting the molecules. One F atom of the tetrafluoridoborate is equally disordered about a crystallographic mirror plane. In the crystal, C—H⋯F interactions link the cations and anions into layers parallel to (100). The crystal packing is further stabilized by F⋯π contacts involving the tetrafluoridoborate anions and the five-membered rings [F⋯centroid = 2.811 (2) Å].
of the title compound, CRelated literature
For applications of N,N′-bis(2-pyridyl)aryldiamines, see: Stoessel et al. (2010); Goldfarb (2009) and of imidazolium salts, see: Berlin et al. (2007); Bold et al. (2005); Huang et al. (2005); Murakami et al. (2007); Teles et al. (1996). For pharmaceuticals based on the aniline–pyridine scaffold, see: Kim et al. (1996); Wu et al. (2001). For the synthesis of the starting material N,N′-bis(pyridin-2-yl)benzene-1,2-diamine, see: Gdaniec et al. (2004).
Experimental
Crystal data
|
Refinement
|
Data collection: CrysAlis PRO (Oxford Diffraction, 2010); cell CrysAlis PRO; data reduction: CrysAlis PRO; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: Mercury (Macrae et al., 2006), ORTEP-3 for Windows (Farrugia, 1997) and POV-RAY for Windows (Cason, 2003); software used to prepare material for publication: WinGX (Farrugia, 1999) and publCIF (Westrip, 2010).
Supporting information
10.1107/S1600536811027942/su2291sup1.cif
contains datablocks global, I. DOI:Structure factors: contains datablock I. DOI: 10.1107/S1600536811027942/su2291Isup2.hkl
Supporting information file. DOI: 10.1107/S1600536811027942/su2291Isup3.cml
To benzene-1,2-diamine (2.7 g, 24.97 mmol) in a microwave vial, 2-chloropyridine (9 ml, 46.95 mmol) was added. The vial was then closed with a cap consisting of a Teflon septum and the reaction mixture was heated for 35 mins at 458 K. Monitoring with TLC (thin layer chromatography) and GC—MS (gas
- mass spectrometry) showed that the benzene-1,2-diamine was consumed after this time and the mixture was allowed to cool to room temperature. The crude mixture was dissolved in water (15 ml) and dropped into a solution of concentrated ammonia in water (25 ml of NH4OH 24.5% in 250 ml of water). The resulting pink-red precipitate was filtered off, washed with water (50 ml) and was subsequently dried in air to give N,N'-bis(pyridin-2-yl)benzene-1,2-diamine. Further recrystallization from ethanol gave a very pure product (yield: 2.902 g, 91%).To N,N'-bis(pyridin-2-yl)benzene-1,2-diamine (500 mg, 1.91 mmol) in a microwave vial, finely ground ammonium tetrafluoroborate (204 mg, 1.91 mmol) was added followed by the triethyl orthoformate (10 ml, 59 mmol). The vial with the red pink suspension was then closed with a cap consisting of a Teflon septum and the reaction mixture was heated for 25 minutes at 413 K and then for further 20 minutes to 433 K. After that time inside the vial a blue-violet solid was present and TLC analysis showed that the starting material had been consumed. The solid was separated off and then stirred with ethyl acetate (3x50 ml) for 15 minutes. It was then collected by suction filtration, washed with diethyl ether and dried to afford a deep violet-blue compound (yield: 686 mg, 99.7%). Recrystallization from a hot
of water/methanol (9/2) afforded red plate-like crystals of the title compound, suitable for X-ray analysis. Spectroscopic data for the title compound are given in the archived CIF.One F atom of the tetrafluoroborate ion is disordered over two positions around a mirror plane (site-occupancy factor of 1/2). H-atom H1 was located in a difference Fourier map and was freely refined. The C-bound H-atoms were included in calculated positions and treated as riding atoms: C—H = 0.93 Å with Uiso(H) = 1.2Ueq(C).
Data collection: CrysAlis PRO (Oxford Diffraction, 2010); cell
CrysAlis PRO (Oxford Diffraction, 2010); data reduction: CrysAlis PRO (Oxford Diffraction, 2010); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: Mercury (Macrae et al., 2006), ORTEP-3 for Windows (Farrugia, 1997) and POV-RAY for Windows (Cason, 2003); software used to prepare material for publication: WinGX (Farrugia, 1999) and publCIF (Westrip, 2010).C17H13N4+·BF4− | F(000) = 736 |
Mr = 360.12 | Dx = 1.52 Mg m−3 |
Orthorhombic, Pnma | Mo Kα radiation, λ = 0.71073 Å |
Hall symbol: -P 2ac 2n | Cell parameters from 4054 reflections |
a = 7.3412 (2) Å | θ = 2.8–32.6° |
b = 17.5051 (5) Å | µ = 0.13 mm−1 |
c = 12.2426 (3) Å | T = 183 K |
V = 1573.28 (7) Å3 | Plate, red |
Z = 4 | 0.44 × 0.31 × 0.11 mm |
Oxford Diffraction Xcalibur diffractometer with a Ruby detector | 1543 reflections with I > 2σ(I) |
ω scans | Rint = 0.022 |
Absorption correction: analytical [CrysAlis PRO (Oxford Diffraction, 2010) based on expressions derived by Clark & Reid (1995)] | θmax = 28.3°, θmin = 3.2° |
Tmin = 0.964, Tmax = 0.991 | h = −9→9 |
8816 measured reflections | k = −20→23 |
2014 independent reflections | l = −12→16 |
Refinement on F2 | 0 restraints |
Least-squares matrix: full | H atoms treated by a mixture of independent and constrained refinement |
R[F2 > 2σ(F2)] = 0.042 | w = 1/[σ2(Fo2) + (0.062P)2 + 0.2418P] where P = (Fo2 + 2Fc2)/3 |
wR(F2) = 0.117 | (Δ/σ)max < 0.001 |
S = 1.08 | Δρmax = 0.27 e Å−3 |
2014 reflections | Δρmin = −0.36 e Å−3 |
130 parameters |
C17H13N4+·BF4− | V = 1573.28 (7) Å3 |
Mr = 360.12 | Z = 4 |
Orthorhombic, Pnma | Mo Kα radiation |
a = 7.3412 (2) Å | µ = 0.13 mm−1 |
b = 17.5051 (5) Å | T = 183 K |
c = 12.2426 (3) Å | 0.44 × 0.31 × 0.11 mm |
Oxford Diffraction Xcalibur diffractometer with a Ruby detector | 2014 independent reflections |
Absorption correction: analytical [CrysAlis PRO (Oxford Diffraction, 2010) based on expressions derived by Clark & Reid (1995)] | 1543 reflections with I > 2σ(I) |
Tmin = 0.964, Tmax = 0.991 | Rint = 0.022 |
8816 measured reflections |
R[F2 > 2σ(F2)] = 0.042 | 0 restraints |
wR(F2) = 0.117 | H atoms treated by a mixture of independent and constrained refinement |
S = 1.08 | Δρmax = 0.27 e Å−3 |
2014 reflections | Δρmin = −0.36 e Å−3 |
130 parameters |
Experimental. Spectroscopic data for the title compound: 1H-NMR in CD3CN: δ = 10.07 (s, 1H), δ = 8.837 (dd, 2H), δ = 8.48 (m, 2H), δ = 8.29 (m,2H), δ = 8.04 (t, 1H), δ = 8.01 (t, 1H), δ = 7.87 (m, 2H) δ = 7.77 (m, 2H). 13C-NMR in CD3CN: δ = 150.95, 141.60, 129.49, 126.93, 118.83, 118.26,116.86. 19F-NMR in CD3CN: δ = -152.32. |
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 | Occ. (<1) | |
C1 | 0.7110 (2) | 0.25 | 0.56060 (15) | 0.0232 (4) | |
C2 | 0.64692 (16) | 0.21032 (7) | 0.39260 (10) | 0.0211 (3) | |
C3 | 0.60860 (17) | 0.16850 (8) | 0.29898 (10) | 0.0243 (3) | |
H3 | 0.6088 | 0.1154 | 0.299 | 0.029* | |
C4 | 0.57020 (17) | 0.20992 (8) | 0.20603 (11) | 0.0263 (3) | |
H4 | 0.5436 | 0.1841 | 0.1416 | 0.032* | |
C5 | 0.69854 (17) | 0.11073 (8) | 0.53968 (11) | 0.0245 (3) | |
C6 | 0.6441 (2) | 0.09450 (9) | 0.64542 (12) | 0.0336 (3) | |
H6 | 0.6026 | 0.1324 | 0.6925 | 0.04* | |
C7 | 0.6546 (2) | 0.01864 (9) | 0.67741 (13) | 0.0397 (4) | |
H7 | 0.622 | 0.0045 | 0.748 | 0.048* | |
C8 | 0.7136 (2) | −0.03573 (9) | 0.60414 (14) | 0.0374 (4) | |
H8 | 0.7192 | −0.087 | 0.624 | 0.045* | |
C9 | 0.7640 (2) | −0.01265 (8) | 0.50081 (14) | 0.0345 (4) | |
H9 | 0.8038 | −0.0496 | 0.4517 | 0.041* | |
N1 | 0.68805 (14) | 0.18768 (6) | 0.49998 (9) | 0.0223 (3) | |
N2 | 0.75864 (17) | 0.06028 (7) | 0.46749 (10) | 0.0302 (3) | |
F1 | 0.58623 (16) | 0.18658 (7) | 0.89742 (12) | 0.0763 (4) | |
F2 | 0.8041 (3) | 0.2711 (2) | 0.98569 (15) | 0.0680 (16) | 0.5 |
F3 | 0.8073 (2) | 0.25 | 0.80661 (11) | 0.0577 (4) | |
B1 | 0.6969 (3) | 0.25 | 0.89769 (19) | 0.0338 (5) | |
H1 | 0.743 (3) | 0.25 | 0.6360 (19) | 0.024 (5)* |
U11 | U22 | U33 | U12 | U13 | U23 | |
C1 | 0.0249 (9) | 0.0230 (10) | 0.0217 (9) | 0 | −0.0010 (7) | 0 |
C2 | 0.0210 (6) | 0.0224 (7) | 0.0200 (6) | 0.0008 (5) | 0.0019 (5) | 0.0021 (5) |
C3 | 0.0254 (6) | 0.0229 (7) | 0.0245 (7) | −0.0016 (5) | 0.0012 (5) | −0.0029 (5) |
C4 | 0.0263 (6) | 0.0313 (7) | 0.0212 (6) | −0.0013 (5) | 0.0002 (5) | −0.0043 (5) |
C5 | 0.0257 (6) | 0.0215 (7) | 0.0263 (7) | −0.0014 (5) | −0.0046 (5) | 0.0030 (5) |
C6 | 0.0450 (8) | 0.0289 (8) | 0.0269 (7) | −0.0052 (6) | −0.0002 (6) | 0.0010 (6) |
C7 | 0.0521 (9) | 0.0371 (9) | 0.0297 (7) | −0.0092 (7) | −0.0045 (7) | 0.0114 (7) |
C8 | 0.0416 (9) | 0.0249 (8) | 0.0457 (9) | −0.0009 (6) | −0.0092 (7) | 0.0117 (7) |
C9 | 0.0388 (8) | 0.0235 (8) | 0.0411 (8) | 0.0055 (6) | −0.0036 (6) | 0.0020 (6) |
N1 | 0.0258 (5) | 0.0211 (6) | 0.0200 (5) | 0.0001 (4) | −0.0006 (4) | 0.0015 (4) |
N2 | 0.0353 (6) | 0.0230 (6) | 0.0325 (6) | 0.0033 (5) | 0.0002 (5) | 0.0019 (5) |
F1 | 0.0558 (7) | 0.0436 (7) | 0.1295 (12) | −0.0010 (5) | 0.0195 (7) | 0.0143 (7) |
F2 | 0.0400 (9) | 0.132 (5) | 0.0315 (9) | −0.0042 (12) | −0.0083 (7) | −0.0174 (14) |
F3 | 0.0646 (10) | 0.0810 (12) | 0.0276 (7) | 0 | 0.0114 (6) | 0 |
B1 | 0.0284 (11) | 0.0494 (16) | 0.0236 (11) | 0 | −0.0016 (9) | 0 |
C1—N1 | 1.3302 (15) | C6—C7 | 1.387 (2) |
C1—H1 | 0.95 (2) | C6—H6 | 0.93 |
C2—C3 | 1.3887 (18) | C7—C8 | 1.378 (2) |
C2—C2i | 1.389 (3) | C7—H7 | 0.93 |
C2—N1 | 1.4060 (16) | C8—C9 | 1.379 (2) |
C3—C4 | 1.3784 (18) | C8—H8 | 0.93 |
C3—H3 | 0.93 | C9—N2 | 1.3408 (19) |
C4—C4i | 1.403 (3) | C9—H9 | 0.93 |
C4—H4 | 0.93 | F1—B1 | 1.3756 (18) |
C5—N2 | 1.3249 (18) | F2—B1 | 1.384 (3) |
C5—C6 | 1.384 (2) | F3—B1 | 1.379 (3) |
C5—N1 | 1.4341 (17) | ||
N1—C1—N1i | 110.20 (16) | C8—C7—H7 | 120.2 |
N1—C1—H1 | 124.88 (9) | C6—C7—H7 | 120.2 |
N1i—C1—H1 | 124.88 (9) | C7—C8—C9 | 118.64 (14) |
C3—C2—C2i | 121.81 (8) | C7—C8—H8 | 120.7 |
C3—C2—N1 | 131.81 (12) | C9—C8—H8 | 120.7 |
C2i—C2—N1 | 106.37 (7) | N2—C9—C8 | 123.39 (15) |
C4—C3—C2 | 116.46 (13) | N2—C9—H9 | 118.3 |
C4—C3—H3 | 121.8 | C8—C9—H9 | 118.3 |
C2—C3—H3 | 121.8 | C1—N1—C2 | 108.53 (11) |
C3—C4—C4i | 121.74 (8) | C1—N1—C5 | 125.06 (12) |
C3—C4—H4 | 119.1 | C2—N1—C5 | 126.39 (11) |
C4i—C4—H4 | 119.1 | C5—N2—C9 | 116.19 (13) |
N2—C5—C6 | 125.68 (13) | F1—B1—F1i | 107.61 (19) |
N2—C5—N1 | 114.70 (12) | F1—B1—F3 | 110.21 (13) |
C6—C5—N1 | 119.61 (12) | F1—B1—F2i | 97.01 (18) |
C5—C6—C7 | 116.38 (14) | F1—B1—F2 | 123.6 (2) |
C5—C6—H6 | 121.8 | F1i—B1—F2 | 97.01 (18) |
C7—C6—H6 | 121.8 | F3—B1—F2 | 107.17 (18) |
C8—C7—C6 | 119.69 (14) |
Symmetry code: (i) x, −y+1/2, z. |
D—H···A | D—H | H···A | D···A | D—H···A |
C1—H1···F3 | 0.95 (2) | 2.14 (2) | 3.094 (2) | 178 (2) |
C9—H9···F1ii | 0.93 | 2.62 | 3.4759 (19) | 154 |
Symmetry code: (ii) −x+3/2, −y, z−1/2. |
Experimental details
Crystal data | |
Chemical formula | C17H13N4+·BF4− |
Mr | 360.12 |
Crystal system, space group | Orthorhombic, Pnma |
Temperature (K) | 183 |
a, b, c (Å) | 7.3412 (2), 17.5051 (5), 12.2426 (3) |
V (Å3) | 1573.28 (7) |
Z | 4 |
Radiation type | Mo Kα |
µ (mm−1) | 0.13 |
Crystal size (mm) | 0.44 × 0.31 × 0.11 |
Data collection | |
Diffractometer | Oxford Diffraction Xcalibur diffractometer with a Ruby detector |
Absorption correction | Analytical [CrysAlis PRO (Oxford Diffraction, 2010) based on expressions derived by Clark & Reid (1995)] |
Tmin, Tmax | 0.964, 0.991 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 8816, 2014, 1543 |
Rint | 0.022 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.042, 0.117, 1.08 |
No. of reflections | 2014 |
No. of parameters | 130 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement |
Δρmax, Δρmin (e Å−3) | 0.27, −0.36 |
Computer programs: CrysAlis PRO (Oxford Diffraction, 2010), SHELXS97 (Sheldrick, 2008), SHELXL97 (Sheldrick, 2008), Mercury (Macrae et al., 2006), ORTEP-3 for Windows (Farrugia, 1997) and POV-RAY for Windows (Cason, 2003), WinGX (Farrugia, 1999) and publCIF (Westrip, 2010).
D—H···A | D—H | H···A | D···A | D—H···A |
C1—H1···F3 | 0.95 (2) | 2.14 (2) | 3.094 (2) | 178.4 (18) |
C9—H9···F1i | 0.93 | 2.62 | 3.4759 (19) | 154 |
Symmetry code: (i) −x+3/2, −y, z−1/2. |
References
Berlin, J. M., Campbell, K., Ritter, T., Funk, T. W., Chlenov, A. & Grubbs, R. H. (2007). Org. Lett. 9, 1339–1342. Web of Science CrossRef PubMed CAS Google Scholar
Bold, M., Lennartz, C., Prinz, M., Schmidt, H.-W., Thelakkat, M., Baete, M., Neuber, C., Kowalsky, W., Schildknecht, C. & Johannes, H.-H. (2005). PCT Int. Appl. WO 2005019373. Google Scholar
Cason, C. J. (2003). POV-RAY. Persistence of Vision Raytracer Pty. Ltd, Victoria, Australia. Google Scholar
Clark, R. C. & Reid, J. S. (1995). Acta Cryst. A51, 887–897. CrossRef CAS Web of Science IUCr Journals Google Scholar
Farrugia, L. J. (1997). J. Appl. Cryst. 30, 565. CrossRef IUCr Journals Google Scholar
Farrugia, L. J. (1999). J. Appl. Cryst. 32, 837–838. CrossRef CAS IUCr Journals Google Scholar
Gdaniec, M., Bensemann, I. & Połoński, T. (2004). Acta Cryst. C60, o215–o216. Web of Science CSD CrossRef CAS IUCr Journals Google Scholar
Goldfarb, D. S. (2009). US Patent Appl. Publ. US 20090163545. Google Scholar
Huang, W., Guo, J., Xiao, Y., Zhu, M., Zou, G. & Tang, J. (2005). Tetrahedron, 61, 9783–9790. CrossRef CAS Google Scholar
Kim, H.-J., Han, Y.-H., Chung, S.-J., Lee, M.-H. & Shim, C.-K. (1996). Arch. Pharm. Res. 19, 297–301. CrossRef CAS Web of Science Google Scholar
Macrae, C. F., Edgington, P. R., McCabe, P., Pidcock, E., Shields, G. P., Taylor, R., Towler, M. & van de Streek, J. (2006). J. Appl. Cryst. 39, 453–457. Web of Science CrossRef CAS IUCr Journals Google Scholar
Murakami, T., Yagi, K., Ichijima, S., Igarashi, T. & Satou, T. (2007). WO 2007034985. Google Scholar
Oxford Diffraction (2010). CrysAlis PRO. Oxford Diffraction Ltd, Yarnton, England. Google Scholar
Sheldrick, G. M. (2008). Acta Cryst. A64, 112–122. Web of Science CrossRef CAS IUCr Journals Google Scholar
Stoessel, P., Heil, H., Joosten, D., Pflumm, C. & Gerhard, A. (2010). PCT Int. Appl. WO 2010099852. Google Scholar
Teles, J. H., Melder, J.-P., Ebel, K., Schneider, R., Gehrer, E., Harder, W., Brode, S., Enders, D., Breuer, K. & Raabe, G. (1996). Helv. Chim. Acta, 79, 61–83. CAS Google Scholar
Westrip, S. P. (2010). J. Appl. Cryst. 43, 920–925. Web of Science CrossRef CAS IUCr Journals Google Scholar
Wu, S. N., Jan, C. R. & Chiang, H. T. (2001). J. Investig. Med. 49, 522–533. Web of Science CrossRef PubMed CAS 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.
N,N'-bis(2-pyridyl)aryldiamines are an important class of compounds that are useful as intermediates in the syntheses of organic electroluminescent devices (LED) (Stoessel et al., 2010), or as compounds useful for altering the lifespan of eukaryotic organisms in the yeast (Goldfarb, 2009). Imidazolium salts based on the benzoimidazole scaffold are used in electronics (Bold et al., 2005; Murakami et al., 2007) and in catalytic processes involving the use of the benzimidazolium salt as it is (Teles et al., 1996), or bound to a metal (Berlin et al., 2007; Huang et al., 2005).
We used the N,N'-bis(2-pyridyl)-benzene-1,2-diamine compound as a starting material for the synthesis of the title compound, a new imidazolium salt. Despite the fact that the synthesis of the starting material N,N'-bis(pyridin-2-yl)benzene-1,2-diamine had been reported previously (Gdaniec et al., 2004), we optimized the procedure to obtain a better yield (91 instead of 70%) using the reaction reported in the Experimental section (Fig. 4) with a microwave technique. A similar procedure was succesfully used to synthesize the title compound in a very high yield (99.7%). It is the first example of a coupling between a halo pyridine and an aniline made with microwave heating that does not imply the use of any metal. This method to couple halo pyridines and anilines can be very useful to produce compounds with pharmaceutical activity since many pharmaceuticals are based on the aniline-pyridine scaffold (Kim et al., 1996; Wu et al., 2001).
The asymmetric unit of the title compound, C17H13N4+.BF4-, contains one half-molecule of the benzimidazolium cation and one half-molecule of the anion, crystallographic mirror planes bisecting the molecules (Fig. 1). One F atom of the tetrafluoroborate is disordered over two positions. The second position being generated by a crystallographic mirror plane, the site-occupancy factor is 0.5. The benzimidazole and pyridine rings are not coplanar, the dihedral angle between the mean planes is 26.67 (4)°.
In the crystal intermolecular C—H···F interactions link the cations and anions into layers parallel to the (100) crystallographic plane (Fig. 2, Table 1). The crystal packing is further stabilizes by F···π contacts (Fig. 3) involving the tetrafluoridoborate anions and the five-membered rings of the benzimidazole rings [F···centroid = 2.811 (2) Å].