| Literature DB >> 26870591 |
Sabrina Syed1, Siti Nadiah Abdul Halim1, Mukesh M Jotani2, Edward R T Tiekink3.
Abstract
The title 2:1 co-crystal, 2C7H5NO4·C14H14N4O2, in which the completeEntities:
Keywords: Hirshfeld surface analysis; carboxylic acid; co-crystal; crystal structure; hydrogen bonding; thioamide
Year: 2016 PMID: 26870591 PMCID: PMC4704746 DOI: 10.1107/S2056989015024068
Source DB: PubMed Journal: Acta Crystallogr E Crystallogr Commun
Figure 1The molecular structures comprising the 2:1 co-crystal in the title compound showing the atom-labelling scheme and displacement ellipsoids at the 70% probability level: (a) p-nitrobenzoic acid and (b) N,N′-bis(pyridin-3-ylmethyl)ethanediamide; unlabelled atoms are related by the symmetry operation 2 − x, 1 − y, 2 − z.
Dihedral angles (°) for p-nitrobenzoic acid in the title co-crystal and in poylmorphic forms reported in the literature
| Structure | C6/CO2 | C6/NO2 | CO2/NO2 | CSD refcode | Ref. |
|---|---|---|---|---|---|
|
| 2.37 (3) | 14.82 (3) | 17.34 (4) | NBZOAC04 | Tonogaki |
|
| 0.80 (10) | 12.89 (9) | 11.47 (12) | NBZOAC11 | Bolte (2009 |
| Co-crystal | 10.16 (9) | 4.24 (4) | 13.50 (8) | – | This work |
Notes: (a) Groom & Allen (2014 ▸).
Hydrogen-bond geometry (Å, °)
|
|
| H⋯ |
|
|
|---|---|---|---|---|
| N2—H2 | 0.88 | 2.35 | 2.7116 (16) | 104 |
| O2—H2 | 0.87 (1) | 1.75 (1) | 2.6114 (17) | 175 (2) |
| N2—H2 | 0.88 | 2.36 | 3.2010 (17) | 159 |
| C2—H2⋯O3 | 0.95 | 2.56 | 3.2062 (19) | 125 |
| C4—H4⋯O1iii | 0.95 | 2.37 | 3.0016 (18) | 124 |
| C5—H5⋯O1iii | 0.95 | 2.54 | 3.0843 (18) | 117 |
| C11—H11⋯O1iv | 0.95 | 2.45 | 3.2278 (18) | 139 |
Symmetry codes: (i) ; (ii) ; (iii) ; (iv) .
Selected geometric details (Å, °) for N,-bis(pyridin-3-ylmethyl)ethanediamide molecules, and halogen/hydrogen bonding in its organic co-crystals and a salt
| Coformer | C4N2O2/pyridyl | C(=O)—C(=O) | Halogen/hydrogen bonding | Refcode | Ref. |
|---|---|---|---|---|---|
|
| 70.56 (7) | 1.544 (4) | I⋯O; amide-N—H⋯N(pyridyl) | IPOSIP | Hursthouse |
| IC CC CI | 76.7 (2) | 1.524 (10) | I⋯N; amide-N—H⋯O(amide) | WANNOP | Goroff |
| IC CC CC CI | 84.6 (2) | 1.548 (11) | I⋯N; amide-N—H⋯O(amide) | WANPIL | Goroff |
| {CC(I)=C(I)C CC(I)=C(I)C} | 80.6 (4) | 1.550 (17) | I⋯N; amide-N—H⋯O(amide) | REWVUM | Jin |
| [HO2CCH2N(H)C(=O)]2 | 64.4 (3) | 1.532 (19) | hydroxy-O—H⋯N(pyridyl); amide-N—H⋯O(amide) | CAJQAG | Nguyen |
| [HO2CCH2N(H)]2C(=O) | 81.47 (6) | 1.515 (3) | hydroxy-O—H⋯N(pyridyl); amide-N—H⋯O(amide) | CAJQEK | Nguyen |
| [2-(CO2H)C6H4S]2 | 61.24 (5), 69.42 (6) | 1.534 (3) | hydroxy-O—H⋯N(pyridyl); amide-N—H⋯O(amide) | KUZSOO | Arman |
| 2-NH2C6H4CO2H | 74.95 (4) | 1.543 (2) | hydroxy-O—H⋯N(pyridyl); amide-N—H⋯O(carbonyl) | DIDZAT | Arman |
| 2,6-(NO2)2C6H3CO2 − | 65.31 (4), 83.22 (5) | 1.541 (2) | pyridinium-N—H⋯O(carboxylate); amide-N—H⋯O(carboxylate) | TIPHAD | Arman |
| 4-NO2C6H4CO2H | 77.22 (6) | 1.530 (3) | hydroxy-O—H⋯N(pyridyl) | – | This work |
Notes: (a) Groom & Allen (2014 ▸). (b) The diamide molecule lacks a centre of inversion. (c) Salt: both pyridyl-N atoms are protonated in the non-symmetric dication.
Figure 2A view of the linear supramolecular ladder in the molecular packing of the title compound. The hydroxyl-O—H⋯N(pyridyl) and amide-N—H⋯O(nitro) hydrogen bonds are shown as orange and blue dashed lines, respectively.
Figure 3A view of the double layer in the title compound where the supramolecular chains shown in Fig. 2 ▸ are connected by pyridyl- and benzene-C—H⋯O(amide) interactions, shown as pink dashed lines. The π–π interactions within the layers (see text) are not shown.
Figure 4A view of the unit-cell contents of the title compound shown in projection down the a axis, whereby the supramolecular layers, illustrated in Fig. 3 ▸, are linked by π–π interactions, shown as purple dashed lines, leading to a three-dimensional architecture.
Figure 5Views of the Hirshfeld surfaces mapped over the calculated electrostatic potential: (a) acid and (b) diamide in the title compound.
Figure 6Views of the Hirshfeld surface mapped over d norm: (a) acid and (b) diamide in the title compound.
Figure 7The two-dimensional fingerprint plot for the title 2:1 co-crystal showing contributions from different contacts: (a) H⋯H, (b) O⋯H/H⋯O, (c) C⋯H/H⋯C, (d) N⋯H/H⋯N and (e) C⋯C.
Figure 8Hirshfeld surfaces mapped over the shape index for (a) the acid and (b) the diamide, highlighting the regions involved in π–π stacking interactions.
Figure 9Hirshfeld surfaces mapped over curvedness for (a) the acid and (b) the diamide, highlighting the regions involved in π–π stacking interactions.
Percentage contribution of the different intermolecular interactions to the Hirshfeld surfaces for the acid, diamide and co-crystal
| Interaction | Acid | Diamide | Co-crystal |
|---|---|---|---|
| H⋯H | 24.3 | 29.7 | 28.6 |
| O⋯H/H⋯O | 40.8 | 38.7 | 37.1 |
| C⋯H/H⋯C | 10.5 | 7.6 | 10.4 |
| N⋯H/H⋯N | 4.5 | 8.2 | 4.4 |
| C⋯C | 6.5 | 7.0 | 7.2 |
| C⋯N/N⋯C | 4.4 | 4.6 | 5.0 |
| C⋯O/O⋯C | 6.5 | 3.1 | 5.4 |
| N⋯O/O⋯N | 0.4 | 0.4 | 0.4 |
| O⋯O | 2.1 | 0.7 | 1.5 |
Enrichment ratios (ER) for the acid, diamide and co-crystal
| Interaction | Acid | Diamide | Co-crystal |
|---|---|---|---|
| H⋯H | 0.89 | 0.92 | 0.96 |
| O⋯H·H⋯O | 1.55 | 1.56 | 1.48 |
| C⋯H/H⋯C | 0.59 | 0.46 | 0.54 |
| N⋯H/H⋯N | 0.94 | 1.09 | 0.82 |
| C⋯C | 3.26 | 2.20 | 2.90 |
Experimental details
| Crystal data | |
| Chemical formula | C14H14N4O2·2C7H5NO4 |
|
| 604.53 |
| Crystal system, space group | Triclinic, |
| Temperature (K) | 100 |
|
| 6.6981 (4), 6.9988 (4), 14.1770 (9) |
| α, β, γ (°) | 91.070 (5), 92.131 (5), 96.602 (5) |
|
| 659.56 (7) |
|
| 1 |
| Radiation type | Mo |
| μ (mm−1) | 0.12 |
| Crystal size (mm) | 0.30 × 0.25 × 0.20 |
| Data collection | |
| Diffractometer | Agilent SuperNova Dual diffractometer with Atlas detector |
| Absorption correction | Multi-scan ( |
|
| 0.633, 1.000 |
| No. of measured, independent and observed [ | 5870, 2645, 2203 |
|
| 0.021 |
| (sin θ/λ)max (Å−1) | 0.628 |
| Refinement | |
|
| 0.040, 0.110, 1.05 |
| No. of reflections | 2645 |
| No. of parameters | 202 |
| No. of restraints | 2 |
| Δρmax, Δρmin (e Å−3) | 0.37, −0.25 |
Computer programs: CrysAlis PRO (Agilent, 2014 ▸), SHELXS97 (Sheldrick, 2008 ▸), SHELXL2014/7 (Sheldrick, 2015 ▸), ORTEP-3 for Windows (Farrugia, 2012 ▸), QMol (Gans & Shalloway, 2001 ▸), DIAMOND (Brandenburg, 2006 ▸) and publCIF (Westrip, 2010 ▸).
| C14H14N4O2·2C7H5NO4 | |
| Triclinic, | |
| Mo | |
| Cell parameters from 2741 reflections | |
| θ = 4.0–28.8° | |
| α = 91.070 (5)° | µ = 0.12 mm−1 |
| β = 92.131 (5)° | |
| γ = 96.602 (5)° | Block, colourless |
| 0.30 × 0.25 × 0.20 mm |
| Agilent SuperNova Dual diffractometer with Atlas detector | 2645 independent reflections |
| Radiation source: SuperNova (Mo) X-ray Source | 2203 reflections with |
| Mirror monochromator | |
| Detector resolution: 10.4041 pixels mm-1 | θmax = 26.5°, θmin = 2.9° |
| ω scan | |
| Absorption correction: multi-scan ( | |
| 5870 measured reflections |
| Refinement on | 2 restraints |
| Least-squares matrix: full | Hydrogen site location: mixed |
| (Δ/σ)max < 0.001 | |
| Δρmax = 0.37 e Å−3 | |
| 2645 reflections | Δρmin = −0.25 e Å−3 |
| 202 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. |
| O1 | 1.11011 (16) | 0.56895 (15) | 0.89399 (7) | 0.0199 (3) | |
| N1 | 0.70817 (19) | 0.71283 (17) | 0.65579 (9) | 0.0186 (3) | |
| N2 | 0.88281 (19) | 0.71178 (17) | 0.97708 (9) | 0.0179 (3) | |
| H2N | 0.8149 | 0.7109 | 1.0291 | 0.021* | |
| C1 | 0.7342 (2) | 0.7881 (2) | 0.82222 (11) | 0.0172 (3) | |
| C2 | 0.8169 (2) | 0.7782 (2) | 0.73381 (11) | 0.0183 (3) | |
| H2 | 0.9561 | 0.8193 | 0.7284 | 0.022* | |
| C3 | 0.5122 (2) | 0.6562 (2) | 0.66314 (11) | 0.0187 (3) | |
| H3 | 0.4350 | 0.6101 | 0.6081 | 0.022* | |
| C4 | 0.4177 (2) | 0.6621 (2) | 0.74804 (11) | 0.0194 (3) | |
| H4 | 0.2778 | 0.6218 | 0.7510 | 0.023* | |
| C5 | 0.5299 (2) | 0.7276 (2) | 0.82860 (11) | 0.0178 (3) | |
| H5 | 0.4680 | 0.7313 | 0.8877 | 0.021* | |
| C6 | 0.8627 (2) | 0.8617 (2) | 0.90832 (11) | 0.0204 (3) | |
| H6A | 0.9980 | 0.9132 | 0.8883 | 0.024* | |
| H6B | 0.8018 | 0.9684 | 0.9386 | 0.024* | |
| C7 | 1.0031 (2) | 0.5762 (2) | 0.96193 (10) | 0.0155 (3) | |
| O2 | 0.87273 (16) | 0.69092 (16) | 0.49240 (8) | 0.0215 (3) | |
| H2O | 0.825 (3) | 0.698 (3) | 0.5481 (8) | 0.032* | |
| O3 | 1.14230 (17) | 0.83861 (17) | 0.57361 (8) | 0.0250 (3) | |
| O4 | 1.41048 (19) | 0.74597 (18) | 0.08648 (8) | 0.0315 (3) | |
| O5 | 1.68626 (18) | 0.82597 (18) | 0.16957 (8) | 0.0298 (3) | |
| N3 | 1.5028 (2) | 0.78448 (18) | 0.16264 (9) | 0.0218 (3) | |
| C8 | 1.0608 (2) | 0.7690 (2) | 0.50090 (11) | 0.0183 (3) | |
| C9 | 1.1723 (2) | 0.7669 (2) | 0.41044 (10) | 0.0163 (3) | |
| C10 | 1.0748 (2) | 0.7181 (2) | 0.32349 (11) | 0.0181 (3) | |
| H10 | 0.9339 | 0.6801 | 0.3201 | 0.022* | |
| C11 | 1.1823 (2) | 0.7246 (2) | 0.24197 (11) | 0.0180 (3) | |
| H11 | 1.1166 | 0.6924 | 0.1823 | 0.022* | |
| C12 | 1.3883 (2) | 0.7791 (2) | 0.24931 (10) | 0.0166 (3) | |
| C13 | 1.4902 (2) | 0.8288 (2) | 0.33481 (11) | 0.0180 (3) | |
| H13 | 1.6310 | 0.8672 | 0.3379 | 0.022* | |
| C14 | 1.3796 (2) | 0.8204 (2) | 0.41546 (11) | 0.0169 (3) | |
| H14 | 1.4458 | 0.8516 | 0.4751 | 0.020* |
| O1 | 0.0189 (6) | 0.0249 (6) | 0.0158 (5) | 0.0010 (4) | 0.0052 (5) | 0.0015 (4) |
| N1 | 0.0224 (7) | 0.0171 (6) | 0.0176 (7) | 0.0061 (5) | 0.0044 (6) | 0.0030 (5) |
| N2 | 0.0194 (7) | 0.0203 (6) | 0.0138 (6) | 0.0013 (5) | 0.0032 (5) | −0.0007 (5) |
| C1 | 0.0206 (8) | 0.0118 (6) | 0.0196 (8) | 0.0035 (6) | 0.0012 (6) | 0.0025 (6) |
| C2 | 0.0178 (8) | 0.0149 (7) | 0.0229 (8) | 0.0031 (6) | 0.0035 (6) | 0.0045 (6) |
| C3 | 0.0211 (8) | 0.0183 (7) | 0.0174 (8) | 0.0048 (6) | 0.0000 (6) | 0.0028 (6) |
| C4 | 0.0182 (8) | 0.0191 (7) | 0.0207 (8) | 0.0010 (6) | 0.0029 (6) | 0.0032 (6) |
| C5 | 0.0208 (8) | 0.0164 (7) | 0.0169 (7) | 0.0027 (6) | 0.0053 (6) | 0.0025 (6) |
| C6 | 0.0217 (8) | 0.0166 (7) | 0.0225 (8) | 0.0003 (6) | 0.0013 (7) | 0.0009 (6) |
| C7 | 0.0133 (7) | 0.0181 (7) | 0.0138 (7) | −0.0025 (6) | −0.0017 (6) | −0.0040 (6) |
| O2 | 0.0197 (6) | 0.0264 (6) | 0.0185 (6) | 0.0011 (5) | 0.0052 (5) | 0.0008 (5) |
| O3 | 0.0243 (6) | 0.0333 (6) | 0.0169 (6) | 0.0014 (5) | 0.0027 (5) | −0.0040 (5) |
| O4 | 0.0396 (8) | 0.0406 (7) | 0.0152 (6) | 0.0078 (6) | 0.0037 (5) | −0.0007 (5) |
| O5 | 0.0234 (7) | 0.0353 (7) | 0.0321 (7) | 0.0051 (5) | 0.0115 (5) | 0.0037 (5) |
| N3 | 0.0273 (8) | 0.0183 (6) | 0.0215 (7) | 0.0070 (6) | 0.0066 (6) | 0.0029 (5) |
| C8 | 0.0179 (8) | 0.0158 (7) | 0.0214 (8) | 0.0031 (6) | 0.0002 (6) | 0.0027 (6) |
| C9 | 0.0190 (8) | 0.0126 (7) | 0.0177 (8) | 0.0029 (6) | 0.0025 (6) | 0.0017 (6) |
| C10 | 0.0153 (7) | 0.0162 (7) | 0.0225 (8) | 0.0010 (6) | 0.0003 (6) | −0.0003 (6) |
| C11 | 0.0217 (8) | 0.0163 (7) | 0.0158 (7) | 0.0024 (6) | −0.0024 (6) | −0.0004 (6) |
| C12 | 0.0212 (8) | 0.0135 (7) | 0.0161 (7) | 0.0044 (6) | 0.0052 (6) | 0.0018 (6) |
| C13 | 0.0163 (8) | 0.0161 (7) | 0.0216 (8) | 0.0022 (6) | 0.0010 (6) | 0.0011 (6) |
| C14 | 0.0190 (8) | 0.0155 (7) | 0.0158 (7) | 0.0016 (6) | −0.0024 (6) | −0.0004 (6) |
| O1—C7 | 1.2256 (17) | O2—C8 | 1.3145 (18) |
| N1—C3 | 1.335 (2) | O2—H2O | 0.867 (9) |
| N1—C2 | 1.344 (2) | O3—C8 | 1.2150 (18) |
| N2—C7 | 1.3329 (19) | O4—N3 | 1.2338 (18) |
| N2—C6 | 1.4594 (19) | O5—N3 | 1.2294 (18) |
| N2—H2N | 0.8800 | N3—C12 | 1.4713 (19) |
| C1—C2 | 1.393 (2) | C8—C9 | 1.508 (2) |
| C1—C5 | 1.392 (2) | C9—C10 | 1.392 (2) |
| C1—C6 | 1.514 (2) | C9—C14 | 1.395 (2) |
| C2—H2 | 0.9500 | C10—C11 | 1.383 (2) |
| C3—C4 | 1.383 (2) | C10—H10 | 0.9500 |
| C3—H3 | 0.9500 | C11—C12 | 1.388 (2) |
| C4—C5 | 1.384 (2) | C11—H11 | 0.9500 |
| C4—H4 | 0.9500 | C12—C13 | 1.387 (2) |
| C5—H5 | 0.9500 | C13—C14 | 1.384 (2) |
| C6—H6A | 0.9900 | C13—H13 | 0.9500 |
| C6—H6B | 0.9900 | C14—H14 | 0.9500 |
| C7—C7i | 1.530 (3) | ||
| C3—N1—C2 | 118.66 (13) | N2—C7—C7i | 113.82 (15) |
| C7—N2—C6 | 120.64 (13) | C8—O2—H2O | 106.0 (13) |
| C7—N2—H2N | 119.7 | O5—N3—O4 | 123.07 (14) |
| C6—N2—H2N | 119.7 | O5—N3—C12 | 118.45 (13) |
| C2—C1—C5 | 117.70 (14) | O4—N3—C12 | 118.48 (13) |
| C2—C1—C6 | 121.03 (14) | O3—C8—O2 | 124.77 (14) |
| C5—C1—C6 | 121.28 (14) | O3—C8—C9 | 121.32 (13) |
| N1—C2—C1 | 122.83 (14) | O2—C8—C9 | 113.91 (13) |
| N1—C2—H2 | 118.6 | C10—C9—C14 | 119.84 (14) |
| C1—C2—H2 | 118.6 | C10—C9—C8 | 122.27 (13) |
| N1—C3—C4 | 122.32 (14) | C14—C9—C8 | 117.88 (13) |
| N1—C3—H3 | 118.8 | C11—C10—C9 | 120.24 (14) |
| C4—C3—H3 | 118.8 | C11—C10—H10 | 119.9 |
| C3—C4—C5 | 119.07 (14) | C9—C10—H10 | 119.9 |
| C3—C4—H4 | 120.5 | C10—C11—C12 | 118.52 (14) |
| C5—C4—H4 | 120.5 | C10—C11—H11 | 120.7 |
| C4—C5—C1 | 119.42 (14) | C12—C11—H11 | 120.7 |
| C4—C5—H5 | 120.3 | C13—C12—C11 | 122.73 (14) |
| C1—C5—H5 | 120.3 | C13—C12—N3 | 118.79 (13) |
| N2—C6—C1 | 112.31 (12) | C11—C12—N3 | 118.48 (13) |
| N2—C6—H6A | 109.1 | C14—C13—C12 | 117.71 (14) |
| C1—C6—H6A | 109.1 | C14—C13—H13 | 121.1 |
| N2—C6—H6B | 109.1 | C12—C13—H13 | 121.1 |
| C1—C6—H6B | 109.1 | C13—C14—C9 | 120.96 (14) |
| H6A—C6—H6B | 107.9 | C13—C14—H14 | 119.5 |
| O1—C7—N2 | 124.82 (14) | C9—C14—H14 | 119.5 |
| O1—C7—C7i | 121.36 (17) | ||
| C3—N1—C2—C1 | 0.5 (2) | O2—C8—C9—C14 | −170.76 (12) |
| C5—C1—C2—N1 | −0.2 (2) | C14—C9—C10—C11 | −0.8 (2) |
| C6—C1—C2—N1 | 179.66 (13) | C8—C9—C10—C11 | 177.77 (13) |
| C2—N1—C3—C4 | −0.1 (2) | C9—C10—C11—C12 | 0.5 (2) |
| N1—C3—C4—C5 | −0.5 (2) | C10—C11—C12—C13 | −0.5 (2) |
| C3—C4—C5—C1 | 0.8 (2) | C10—C11—C12—N3 | 179.50 (12) |
| C2—C1—C5—C4 | −0.4 (2) | O5—N3—C12—C13 | 2.7 (2) |
| C6—C1—C5—C4 | 179.72 (13) | O4—N3—C12—C13 | −177.78 (13) |
| C7—N2—C6—C1 | 75.28 (17) | O5—N3—C12—C11 | −177.38 (13) |
| C2—C1—C6—N2 | −113.64 (15) | O4—N3—C12—C11 | 2.2 (2) |
| C5—C1—C6—N2 | 66.21 (18) | C11—C12—C13—C14 | 0.8 (2) |
| C6—N2—C7—O1 | 3.1 (2) | N3—C12—C13—C14 | −179.25 (12) |
| C6—N2—C7—C7i | −176.55 (14) | C12—C13—C14—C9 | −1.0 (2) |
| O3—C8—C9—C10 | −168.99 (14) | C10—C9—C14—C13 | 1.0 (2) |
| O2—C8—C9—C10 | 10.7 (2) | C8—C9—C14—C13 | −177.57 (13) |
| O3—C8—C9—C14 | 9.6 (2) |
| H··· | ||||
| N2—H2 | 0.88 | 2.35 | 2.7116 (16) | 104 |
| O2—H2 | 0.87 (1) | 1.75 (1) | 2.6114 (17) | 175 (2) |
| N2—H2 | 0.88 | 2.36 | 3.2010 (17) | 159 |
| C2—H2···O3 | 0.95 | 2.56 | 3.2062 (19) | 125 |
| C4—H4···O1iii | 0.95 | 2.37 | 3.0016 (18) | 124 |
| C5—H5···O1iii | 0.95 | 2.54 | 3.0843 (18) | 117 |
| C11—H11···O1iv | 0.95 | 2.45 | 3.2278 (18) | 139 |