| Literature DB >> 27840724 |
Patrick J Quinlivan1, Rita K Upmacis2.
Abstract
1,2-Dimethyl-5-nitro-imidazole (dimetridazole, dimet) is a compound that belongs to a class of nitro-imidazole drugs that are effective at inhibiting the activity of certain parasites and bacteria. However, there are few reports that describe structures of compounds that feature metals complexed by dimet. Therefore, we report here that dimet reacts with CuCl2·H2O to yield a chloride-bridged copper(II) dimer, [Cu2Cl4(C5H7N3O2)4] or [Cu(μ-Cl)Cl(dimet)2]2. In this mol-ecule, the CuII ions are coordinated in an approximately trigonal-bipyramidal manner, and the mol-ecule lies across an inversion center. The dihedral angle between the imidazole rings in the asymmetric unit is 4.28 (7)°. Compared to metronidazole, dimetridazole lacks the hy-droxy-ethyl group, and thus cannot form inter-molecular O⋯H hydrogen-bonding inter-actions. Instead, [Cu(μ-Cl)Cl(dimet)2]2 exhibits weak inter-molecular inter-actions between the hydrogen atoms of C-H groups and (i) oxygen in the nitro groups, and (ii) the terminal and bridging chloride ligands. The unit cell contains four disordered aceto-nitrile mol-ecules. These were modeled as providing a diffuse contribution to the overall scattering by SQUEEZE [Spek (2015 ▸). Acta Cryst. C71, 9-18], which identified two voids, each with a volume of 163 Å3 and a count of 46 electrons, indicative of a total of four aceto-nitrile mol-ecules. These aceto-nitrile mol-ecules are included in the chemical formula to give the expected calculated density and F(000).Entities:
Keywords: chloride-bridged dimer; copper(II); crystal structure; dimet; dimetridazole
Year: 2016 PMID: 27840724 PMCID: PMC5095849 DOI: 10.1107/S2056989016015413
Source DB: PubMed Journal: Acta Crystallogr E Crystallogr Commun
Figure 1A comparison of the structures of (a) metronidazole (MET) and (b) dimetridazole (dimet).
Figure 2The molecular structure of [Cu(μ-Cl)Cl(dimet)2]2, with displacement ellipsoids depicted at the 30% probability level. H atoms associated with methyl groups are not shown [symmetry code (’): −x, −y + 1, −z + 1].
Figure 3A comparison of the structures of the dinuclear Cu complexes which are derived from (a) metronidazole (MET) and (b) dimetridazole (dimet).
Hydrogen-bond geometry (Å, °)
|
|
| H⋯ |
|
|
|---|---|---|---|---|
| C25—H25 | 0.98 | 2.39 | 3.2804 (17) | 150 |
| C15—H15 | 0.98 | 2.73 | 3.6737 (13) | 163 |
| C12—H12 | 0.95 | 2.51 | 3.4029 (16) | 156 |
| C22—H22 | 0.95 | 2.75 | 3.6828 (12) | 167 |
| C24—H24 | 0.98 | 2.84 | 3.7555 (13) | 156 |
Symmetry codes: (i) ; (ii) ; (iii) .
Figure 4Weak intermolecular hydrogen-bonding interactions (shown as dashed lines) for [Cu(μ-Cl)Cl(dimet)2]2.
Experimental details
| Crystal data | |
| Chemical formula | [Cu2Cl4(C5H7N3O2)4]·2C2H3N |
|
| 915.53 |
| Crystal system, space group | Monoclinic, |
| Temperature (K) | 130 |
|
| 13.9545 (8), 6.7004 (4), 19.5031 (11) |
| β (°) | 96.424 (1) |
|
| 1812.10 (18) |
|
| 2 |
| Radiation type | Mo |
| μ (mm−1) | 1.54 |
| Crystal size (mm) | 0.35 × 0.17 × 0.10 |
| Data collection | |
| Diffractometer | Bruker APEXII CCD |
| Absorption correction | Multi-scan ( |
|
| 0.637, 0.746 |
| No. of measured, independent and observed [ | 28822, 5564, 5034 |
|
| 0.033 |
| (sin θ/λ)max (Å−1) | 0.716 |
| Refinement | |
|
| 0.024, 0.071, 1.26 |
| No. of reflections | 5564 |
| No. of parameters | 212 |
| H-atom treatment | H-atom parameters constrained |
| Δρmax, Δρmin (e Å−3) | 0.51, −0.51 |
Computer programs: APEX2 and SAINT (Bruker, 2010 ▸), SHELXS97 and SHELXTL (Sheldrick, 2008 ▸) and SHELXL2014 (Sheldrick, 2015 ▸).
| [Cu2Cl4(C5H7N3O2)4]·2C2H3N | |
| Monoclinic, | Mo |
| Cell parameters from 9452 reflections | |
| θ = 2.9–30.6° | |
| µ = 1.54 mm−1 | |
| β = 96.424 (1)° | |
| Block, blue | |
| 0.35 × 0.17 × 0.10 mm |
| Bruker APEXII CCD diffractometer | 5034 reflections with |
| φ and ω scans | |
| Absorption correction: multi-scan (SADABS; Bruker, 2010) | θmax = 30.6°, θmin = 1.5° |
| 28822 measured reflections | |
| 5564 independent reflections |
| Refinement on | 0 restraints |
| Least-squares matrix: full | Hydrogen site location: inferred from neighbouring sites |
| H-atom parameters constrained | |
| (Δ/σ)max = 0.033 | |
| 5564 reflections | Δρmax = 0.51 e Å−3 |
| 212 parameters | Δρmin = −0.51 e Å−3 |
| 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. |
| Cu | 0.41957 (2) | 0.46806 (2) | 0.42320 (2) | 0.01249 (5) | |
| Cl1 | 0.32308 (2) | 0.45734 (5) | 0.32075 (2) | 0.02105 (7) | |
| Cl2 | 0.46436 (2) | 0.25939 (4) | 0.52033 (2) | 0.01295 (6) | |
| O11 | 0.10021 (7) | 0.39434 (18) | 0.58607 (6) | 0.0303 (2) | |
| O12 | 0.02709 (7) | 0.66914 (16) | 0.55203 (5) | 0.0280 (2) | |
| O21 | 0.81805 (7) | 0.13329 (16) | 0.33794 (5) | 0.0263 (2) | |
| O22 | 0.72749 (7) | −0.08394 (15) | 0.38274 (6) | 0.0276 (2) | |
| N11 | 0.09544 (8) | 0.55179 (17) | 0.55458 (6) | 0.0209 (2) | |
| N12 | 0.18478 (7) | 0.77681 (16) | 0.48250 (5) | 0.01611 (19) | |
| N13 | 0.30915 (7) | 0.58276 (15) | 0.46736 (5) | 0.01353 (18) | |
| N21 | 0.74156 (7) | 0.07990 (16) | 0.35776 (5) | 0.0175 (2) | |
| N22 | 0.65940 (7) | 0.39673 (15) | 0.31873 (5) | 0.01363 (18) | |
| N23 | 0.53211 (7) | 0.37776 (14) | 0.37688 (5) | 0.01264 (18) | |
| C11 | 0.17488 (8) | 0.59978 (19) | 0.51720 (6) | 0.0164 (2) | |
| C12 | 0.25207 (9) | 0.48130 (18) | 0.50794 (6) | 0.0152 (2) | |
| H12A | 0.2639 | 0.3513 | 0.5264 | 0.018* | |
| C13 | 0.26757 (8) | 0.76046 (17) | 0.45264 (6) | 0.0146 (2) | |
| C14 | 0.12067 (10) | 0.9527 (2) | 0.47787 (8) | 0.0247 (3) | |
| H14A | 0.1480 | 1.0572 | 0.4508 | 0.037* | |
| H14B | 0.1145 | 1.0030 | 0.5244 | 0.037* | |
| H14C | 0.0569 | 0.9147 | 0.4554 | 0.037* | |
| C15 | 0.30624 (9) | 0.92050 (19) | 0.41131 (7) | 0.0189 (2) | |
| H15A | 0.3555 | 0.8650 | 0.3847 | 0.028* | |
| H15B | 0.3350 | 1.0252 | 0.4422 | 0.028* | |
| H15C | 0.2538 | 0.9774 | 0.3797 | 0.028* | |
| C21 | 0.66334 (8) | 0.21847 (17) | 0.35462 (6) | 0.0138 (2) | |
| C22 | 0.58485 (8) | 0.20765 (17) | 0.39040 (6) | 0.0135 (2) | |
| H22A | 0.5696 | 0.1011 | 0.4194 | 0.016* | |
| C23 | 0.57767 (8) | 0.48769 (17) | 0.33275 (6) | 0.0131 (2) | |
| C24 | 0.72860 (10) | 0.4744 (2) | 0.27397 (7) | 0.0218 (3) | |
| H24A | 0.7509 | 0.3653 | 0.2463 | 0.033* | |
| H24B | 0.7838 | 0.5330 | 0.3024 | 0.033* | |
| H24C | 0.6973 | 0.5768 | 0.2433 | 0.033* | |
| C25 | 0.54213 (9) | 0.68022 (18) | 0.30190 (6) | 0.0181 (2) | |
| H25A | 0.4740 | 0.6973 | 0.3085 | 0.027* | |
| H25B | 0.5491 | 0.6802 | 0.2525 | 0.027* | |
| H25C | 0.5798 | 0.7902 | 0.3244 | 0.027* |
| Cu | 0.01138 (8) | 0.01446 (8) | 0.01188 (8) | 0.00362 (5) | 0.00239 (5) | −0.00060 (5) |
| Cl1 | 0.01728 (14) | 0.02815 (16) | 0.01670 (14) | 0.00367 (11) | −0.00253 (11) | −0.00714 (11) |
| Cl2 | 0.01421 (12) | 0.01058 (12) | 0.01442 (12) | 0.00041 (9) | 0.00312 (9) | 0.00093 (9) |
| O11 | 0.0229 (5) | 0.0378 (6) | 0.0318 (6) | 0.0017 (4) | 0.0102 (4) | 0.0092 (5) |
| O12 | 0.0167 (4) | 0.0344 (6) | 0.0343 (6) | 0.0063 (4) | 0.0090 (4) | −0.0021 (4) |
| O21 | 0.0165 (4) | 0.0332 (5) | 0.0304 (5) | 0.0058 (4) | 0.0078 (4) | 0.0035 (4) |
| O22 | 0.0259 (5) | 0.0198 (4) | 0.0379 (6) | 0.0084 (4) | 0.0066 (4) | 0.0071 (4) |
| N11 | 0.0131 (5) | 0.0292 (6) | 0.0208 (5) | 0.0021 (4) | 0.0034 (4) | −0.0032 (4) |
| N12 | 0.0126 (4) | 0.0188 (5) | 0.0171 (5) | 0.0049 (4) | 0.0020 (4) | −0.0022 (4) |
| N13 | 0.0116 (4) | 0.0151 (4) | 0.0140 (4) | 0.0015 (3) | 0.0020 (3) | −0.0017 (3) |
| N21 | 0.0157 (5) | 0.0211 (5) | 0.0157 (5) | 0.0038 (4) | 0.0018 (4) | −0.0016 (4) |
| N22 | 0.0139 (4) | 0.0151 (4) | 0.0122 (4) | 0.0009 (4) | 0.0029 (3) | 0.0007 (3) |
| N23 | 0.0135 (4) | 0.0125 (4) | 0.0122 (4) | 0.0023 (3) | 0.0026 (3) | 0.0003 (3) |
| C11 | 0.0131 (5) | 0.0211 (6) | 0.0155 (5) | 0.0017 (4) | 0.0035 (4) | −0.0016 (4) |
| C12 | 0.0132 (5) | 0.0173 (5) | 0.0153 (5) | 0.0001 (4) | 0.0022 (4) | −0.0009 (4) |
| C13 | 0.0116 (5) | 0.0171 (5) | 0.0148 (5) | 0.0015 (4) | 0.0001 (4) | −0.0034 (4) |
| C14 | 0.0214 (6) | 0.0248 (7) | 0.0287 (7) | 0.0140 (5) | 0.0061 (5) | 0.0000 (5) |
| C15 | 0.0190 (6) | 0.0162 (5) | 0.0217 (6) | 0.0024 (4) | 0.0030 (5) | 0.0019 (4) |
| C21 | 0.0139 (5) | 0.0143 (5) | 0.0135 (5) | 0.0031 (4) | 0.0020 (4) | −0.0008 (4) |
| C22 | 0.0154 (5) | 0.0122 (5) | 0.0130 (5) | 0.0023 (4) | 0.0025 (4) | 0.0005 (4) |
| C23 | 0.0142 (5) | 0.0133 (5) | 0.0118 (5) | 0.0007 (4) | 0.0015 (4) | −0.0009 (4) |
| C24 | 0.0190 (6) | 0.0278 (7) | 0.0202 (6) | 0.0008 (5) | 0.0087 (5) | 0.0068 (5) |
| C25 | 0.0207 (6) | 0.0158 (5) | 0.0186 (6) | 0.0031 (4) | 0.0049 (4) | 0.0047 (4) |
| Cu—N23 | 1.9914 (9) | N22—C24 | 1.4678 (16) |
| Cu—N13 | 2.0009 (10) | N23—C23 | 1.3455 (15) |
| Cu—Cl1 | 2.2822 (3) | N23—C22 | 1.3663 (14) |
| Cu—Cl2 | 2.3811 (3) | C11—C12 | 1.3662 (16) |
| Cu—Cl2i | 2.6024 (3) | C12—H12A | 0.9500 |
| Cl2—Cui | 2.6024 (3) | C13—C15 | 1.4792 (17) |
| O11—N11 | 1.2188 (16) | C14—H14A | 0.9800 |
| O12—N11 | 1.2329 (14) | C14—H14B | 0.9800 |
| O12—N11ii | 2.9399 (15) | C14—H14C | 0.9800 |
| O21—N21 | 1.2285 (14) | C15—H15A | 0.9800 |
| O22—N21 | 1.2258 (15) | C15—H15B | 0.9800 |
| N11—C11 | 1.4299 (16) | C15—H15C | 0.9800 |
| N11—O12ii | 2.9399 (15) | C21—C22 | 1.3649 (16) |
| N12—C13 | 1.3552 (15) | C22—H22A | 0.9500 |
| N12—C11 | 1.3802 (16) | C23—C25 | 1.4850 (16) |
| N12—C14 | 1.4764 (15) | C24—H24A | 0.9800 |
| N13—C13 | 1.3414 (15) | C24—H24B | 0.9800 |
| N13—C12 | 1.3653 (15) | C24—H24C | 0.9800 |
| N21—C21 | 1.4291 (15) | C25—H25A | 0.9800 |
| N22—C23 | 1.3478 (15) | C25—H25B | 0.9800 |
| N22—C21 | 1.3823 (15) | C25—H25C | 0.9800 |
| N23—Cu—N13 | 175.06 (4) | N13—C12—H12A | 126.1 |
| N23—Cu—Cl1 | 90.65 (3) | N13—C13—N12 | 110.42 (11) |
| N13—Cu—Cl1 | 88.95 (3) | N13—C13—C15 | 125.78 (11) |
| N23—Cu—Cl2 | 91.85 (3) | N12—C13—C15 | 123.78 (11) |
| N13—Cu—Cl2 | 91.68 (3) | N12—C14—H14A | 109.5 |
| Cl1—Cu—Cl2 | 139.002 (12) | N12—C14—H14B | 109.5 |
| N23—Cu—Cl2i | 85.42 (3) | H14A—C14—H14B | 109.5 |
| N13—Cu—Cl2i | 91.21 (3) | N12—C14—H14C | 109.5 |
| Cl1—Cu—Cl2i | 132.139 (12) | H14A—C14—H14C | 109.5 |
| Cl2—Cu—Cl2i | 88.842 (10) | H14B—C14—H14C | 109.5 |
| Cu—Cl2—Cui | 91.158 (10) | C13—C15—H15A | 109.5 |
| N11—O12—N11ii | 95.37 (8) | C13—C15—H15B | 109.5 |
| O11—N11—O12 | 124.80 (11) | H15A—C15—H15B | 109.5 |
| O11—N11—C11 | 116.73 (10) | C13—C15—H15C | 109.5 |
| O12—N11—C11 | 118.46 (11) | H15A—C15—H15C | 109.5 |
| O11—N11—O12ii | 85.14 (8) | H15B—C15—H15C | 109.5 |
| O12—N11—O12ii | 84.63 (8) | C22—C21—N22 | 108.42 (10) |
| C11—N11—O12ii | 100.10 (7) | C22—C21—N21 | 126.61 (11) |
| C13—N12—C11 | 106.15 (10) | N22—C21—N21 | 124.75 (10) |
| C13—N12—C14 | 125.32 (11) | C21—C22—N23 | 107.62 (10) |
| C11—N12—C14 | 128.53 (10) | C21—C22—H22A | 126.2 |
| C13—N13—C12 | 107.43 (10) | N23—C22—H22A | 126.2 |
| C13—N13—Cu | 125.75 (8) | N23—C23—N22 | 110.69 (10) |
| C12—N13—Cu | 125.84 (8) | N23—C23—C25 | 125.06 (10) |
| O21—N21—O22 | 124.71 (11) | N22—C23—C25 | 124.23 (11) |
| O21—N21—C21 | 118.93 (11) | N22—C24—H24A | 109.5 |
| O22—N21—C21 | 116.32 (10) | N22—C24—H24B | 109.5 |
| C23—N22—C21 | 105.94 (9) | H24A—C24—H24B | 109.5 |
| C23—N22—C24 | 126.03 (10) | N22—C24—H24C | 109.5 |
| C21—N22—C24 | 128.03 (10) | H24A—C24—H24C | 109.5 |
| C23—N23—C22 | 107.29 (9) | H24B—C24—H24C | 109.5 |
| C23—N23—Cu | 125.24 (8) | C23—C25—H25A | 109.5 |
| C22—N23—Cu | 126.94 (8) | C23—C25—H25B | 109.5 |
| C12—C11—N12 | 108.11 (10) | H25A—C25—H25B | 109.5 |
| C12—C11—N11 | 127.19 (12) | C23—C25—H25C | 109.5 |
| N12—C11—N11 | 124.69 (10) | H25A—C25—H25C | 109.5 |
| C11—C12—N13 | 107.88 (11) | H25B—C25—H25C | 109.5 |
| C11—C12—H12A | 126.1 | ||
| N11ii—O12—N11—O11 | −80.27 (13) | C11—N12—C13—C15 | −178.76 (11) |
| N11ii—O12—N11—C11 | 98.59 (11) | C14—N12—C13—C15 | 0.78 (19) |
| N11ii—O12—N11—O12ii | 0.0 | C23—N22—C21—C22 | −1.06 (13) |
| C13—N12—C11—C12 | 0.40 (13) | C24—N22—C21—C22 | 179.19 (11) |
| C14—N12—C11—C12 | −179.12 (12) | C23—N22—C21—N21 | −175.98 (11) |
| C13—N12—C11—N11 | −178.29 (11) | C24—N22—C21—N21 | 4.28 (19) |
| C14—N12—C11—N11 | 2.2 (2) | O21—N21—C21—C22 | −160.72 (12) |
| O11—N11—C11—C12 | 6.01 (19) | O22—N21—C21—C22 | 16.86 (18) |
| O12—N11—C11—C12 | −172.94 (12) | O21—N21—C21—N22 | 13.27 (17) |
| O12ii—N11—C11—C12 | −83.60 (13) | O22—N21—C21—N22 | −169.15 (11) |
| O11—N11—C11—N12 | −175.55 (12) | N22—C21—C22—N23 | 0.11 (13) |
| O12—N11—C11—N12 | 5.50 (18) | N21—C21—C22—N23 | 174.90 (11) |
| O12ii—N11—C11—N12 | 94.84 (12) | C23—N23—C22—C21 | 0.90 (13) |
| N12—C11—C12—N13 | −0.50 (13) | Cu—N23—C22—C21 | −171.07 (8) |
| N11—C11—C12—N13 | 178.15 (11) | C22—N23—C23—N22 | −1.62 (13) |
| C13—N13—C12—C11 | 0.40 (13) | Cu—N23—C23—N22 | 170.52 (7) |
| Cu—N13—C12—C11 | −168.81 (8) | C22—N23—C23—C25 | 176.82 (11) |
| C12—N13—C13—N12 | −0.15 (13) | Cu—N23—C23—C25 | −11.04 (16) |
| Cu—N13—C13—N12 | 169.07 (8) | C21—N22—C23—N23 | 1.66 (13) |
| C12—N13—C13—C15 | 178.42 (11) | C24—N22—C23—N23 | −178.59 (11) |
| Cu—N13—C13—C15 | −12.36 (17) | C21—N22—C23—C25 | −176.79 (11) |
| C11—N12—C13—N13 | −0.16 (13) | C24—N22—C23—C25 | 2.96 (19) |
| C14—N12—C13—N13 | 179.38 (11) |
| H··· | ||||
| C25—H25 | 0.98 | 2.39 | 3.2804 (17) | 150 |
| C15—H15 | 0.98 | 2.73 | 3.6737 (13) | 163 |
| C12—H12 | 0.95 | 2.51 | 3.4029 (16) | 156 |
| C22—H22 | 0.95 | 2.75 | 3.6828 (12) | 167 |
| C24—H24 | 0.98 | 2.84 | 3.7555 (13) | 156 |