| Literature DB >> 27308047 |
Robert Swinton Darious1, Packianathan Thomas Muthiah1, Franc Perdih2.
Abstract
The asymmetric unit of the title co-crystal, C12H9N5O·0.5C6H10O4, consists of one mol-ecule of N (6)-benzoyl-adenine (BA) and one half-mol-ecule of adipic acid (AA), the other half being generated by inversion symmetry. The dihedral angle between the adenine and phenyl ring planes is 26.71 (7)°. The N (6)-benzoyl-adenine mol-ecule crystallizes in the N(7)-H tautomeric form with three non-protonated N atoms. This tautomeric form is stabilized by intra-molecular N-H⋯O hydrogen bonding between the carbonyl (C=O) group and the N(7)-H hydrogen atom on the Hoogsteen face of the purine ring, forming an S(7) ring motif. The two carboxyl groups of adipic acid inter-act with the Watson-Crick face of the BA mol-ecules through O-H⋯N and N-H⋯O hydrogen bonds, generating an R 2 (2)(8) ring motif. The latter units are linked by N-H⋯N hydrogen bonds, forming layers parallel to (10-5). A weak C-H⋯O hydrogen bond is also present, linking adipic acid mol-ecules in neighbouring layers, enclosing R (2) 2(10) ring motifs and forming a three-dimensional structure. C=O⋯π and C-H⋯π inter-actions are also present in the structure.Entities:
Keywords: N6-benzoyladenine; adipic acid; co-crystal; crystal structure; hydrogen bond; supramolecular sheet; π–π stacking
Year: 2016 PMID: 27308047 PMCID: PMC4908553 DOI: 10.1107/S2056989016007581
Source DB: PubMed Journal: Acta Crystallogr E Crystallogr Commun
Hydrogen-bond geometry (Å, °)
Cg is the centroid of the C11–C16 phenyl ring.
|
|
| H⋯ |
|
|
|---|---|---|---|---|
| O2—H2 | 0.82 | 1.92 | 2.7327 (19) | 175 |
| N6—H6⋯O3 | 0.86 | 2.09 | 2.904 (11) | 157 |
| N7—H7⋯O1 | 0.86 | 2.04 | 2.616 (16) | 124 |
| N7—H7⋯N9iii | 0.86 | 2.17 | 2.9271 (17) | 146 |
| C19—H19 | 0.97 | 2.54 | 3.481 (11) | 164 |
| C2—H2⋯ | 0.93 | 2.94 | 3.4611 (16) | 117 |
Symmetry codes: (i) ; (ii) ; (iii) ; (iv) ; (v) .
Figure 1A Mercury (Macrae et al., 2008 ▸) view of the title compound (I), showing the atom-numbering scheme. Disordered oxygen atoms are omitted for clarity. H atoms not involved in hydrogen bonding have been omitted for clarity. Unlabelled atoms are related by the symmetry operation 1 − x, 1 − y, −z.
Figure 2A view of the sheet-like supramolecular architecture generated via C19—H19B⋯O3A hydrogen bonds (black dotted lines). Phenyl rings are indicated as yellow balls. H atoms not involved in hydrogen bonding have been omitted for clarity. Symmetry codes are as given in Table 1 ▸.
Figure 3(a) A view of the C—H⋯π interaction in compound (I). Cg3 is the centroid of the phenyl ring of the BA molecule (symmetry code: x, −1 + y, z). (b) A view of the C=O⋯π interaction. Cg2 is the centroid of the pyrimidine ring of the BA molecule (symmetry code: 1 − x, + y, − z).
Experimental details
| Crystal data | |
| Chemical formula | C12H9N5O·0.5C6H10O4 |
|
| 312.31 |
| Crystal system, space group | Monoclinic, |
| Temperature (K) | 293 |
|
| 6.1776 (4), 9.2296 (4), 25.7480 (15) |
| β (°) | 97.117 (6) |
|
| 1456.76 (14) |
|
| 4 |
| Radiation type | Mo |
| μ (mm−1) | 0.10 |
| Crystal size (mm) | 0.60 × 0.60 × 0.40 |
| Data collection | |
| Diffractometer | Agilent SuperNova Dual Source diffractometer with an Atlas detector |
| Absorption correction | Multi-scan ( |
|
| 0.756, 1.000 |
| No. of measured, independent and observed [ | 9480, 3325, 2755 |
|
| 0.020 |
| (sin θ/λ)max (Å−1) | 0.649 |
| Refinement | |
|
| 0.045, 0.122, 1.05 |
| No. of reflections | 3325 |
| No. of parameters | 230 |
| H-atom treatment | H-atom parameters constrained |
| Δρmax, Δρmin (e Å−3) | 0.25, −0.22 |
Computer programs: CrysAlis PRO (Agilent, 2013 ▸), SUPERFLIP (Palatinus & Chapuis, 2007 ▸), SHELXL2014 (Sheldrick, 2015 ▸), PLATON (Spek, 2009 ▸) and Mercury (Macrae et al., 2008 ▸).
| C12H9N5O·0.5C6H10O4 | |
| Monoclinic, | Mo |
| Cell parameters from 4139 reflections | |
| θ = 3.3–30.1° | |
| µ = 0.10 mm−1 | |
| β = 97.117 (6)° | |
| Prism, colorless | |
| 0.60 × 0.60 × 0.40 mm |
| Agilent SuperNova Dual Source diffractometer with an Atlas detector | 3325 independent reflections |
| Radiation source: SuperNova (Mo) X-ray Source | 2755 reflections with |
| Mirror monochromator | |
| Detector resolution: 10.4933 pixels mm-1 | θmax = 27.5°, θmin = 3.2° |
| ω scans | |
| Absorption correction: multi-scan ( | |
| 9480 measured reflections |
| Refinement on | Hydrogen site location: mixed |
| Least-squares matrix: full | H-atom parameters constrained |
| (Δ/σ)max < 0.001 | |
| Δρmax = 0.25 e Å−3 | |
| 3325 reflections | Δρmin = −0.22 e Å−3 |
| 230 parameters | Extinction correction: |
| 0 restraints | Extinction coefficient: 0.0130 (18) |
| 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. |
| Occ. (<1) | |||||
| O1A | 0.7104 (15) | 0.6427 (14) | 0.1669 (8) | 0.094 (4) | 0.57 (3) |
| O1B | 0.6582 (19) | 0.6621 (6) | 0.1877 (4) | 0.054 (2) | 0.43 (3) |
| N1 | 0.3308 (2) | 0.27081 (12) | 0.16588 (5) | 0.0415 (3) | |
| N3 | 0.5648 (2) | 0.09828 (13) | 0.21438 (5) | 0.0477 (3) | |
| N6 | 0.39990 (19) | 0.51100 (12) | 0.15270 (5) | 0.0391 (3) | |
| H6 | 0.2702 | 0.5109 | 0.1361 | 0.047* | |
| N7 | 0.85319 (19) | 0.42515 (12) | 0.22672 (5) | 0.0402 (3) | |
| H7 | 0.8790 | 0.5157 | 0.2226 | 0.048* | |
| N9 | 0.9054 (2) | 0.19667 (13) | 0.25397 (5) | 0.0470 (3) | |
| C2 | 0.3848 (3) | 0.13827 (15) | 0.18545 (6) | 0.0468 (4) | |
| H2 | 0.2811 | 0.0660 | 0.1774 | 0.056* | |
| C4 | 0.7054 (2) | 0.20808 (14) | 0.22480 (5) | 0.0389 (3) | |
| C5 | 0.6683 (2) | 0.35149 (13) | 0.20707 (5) | 0.0352 (3) | |
| C6 | 0.4717 (2) | 0.38085 (13) | 0.17619 (5) | 0.0347 (3) | |
| C8 | 0.9855 (3) | 0.32896 (15) | 0.25376 (6) | 0.0451 (4) | |
| H8 | 1.1219 | 0.3535 | 0.2709 | 0.054* | |
| C10 | 0.5100 (3) | 0.63803 (16) | 0.15283 (7) | 0.0493 (4) | |
| C11 | 0.4104 (2) | 0.75951 (14) | 0.11985 (6) | 0.0412 (3) | |
| C12 | 0.5550 (3) | 0.86137 (17) | 0.10534 (7) | 0.0544 (4) | |
| H12 | 0.7028 | 0.8527 | 0.1173 | 0.065* | |
| C13 | 0.4831 (3) | 0.97575 (19) | 0.07333 (8) | 0.0627 (5) | |
| H13 | 0.5825 | 1.0423 | 0.0630 | 0.075* | |
| C14 | 0.2660 (3) | 0.99109 (19) | 0.05686 (7) | 0.0628 (5) | |
| H14 | 0.2168 | 1.0681 | 0.0353 | 0.075* | |
| C15 | 0.1208 (3) | 0.8931 (2) | 0.07213 (8) | 0.0655 (5) | |
| H15 | −0.0274 | 0.9047 | 0.0611 | 0.079* | |
| C16 | 0.1909 (3) | 0.77622 (18) | 0.10389 (7) | 0.0538 (4) | |
| H16 | 0.0908 | 0.7102 | 0.1142 | 0.065* | |
| O2 | 0.9399 (2) | 0.25032 (13) | 0.10377 (6) | 0.0694 (4) | |
| H2A | 1.0565 | 0.2620 | 0.1223 | 0.104* | |
| O3A | 1.0228 (15) | 0.4644 (11) | 0.0753 (5) | 0.072 (2) | 0.63 (3) |
| O3B | 0.951 (3) | 0.4828 (6) | 0.0985 (9) | 0.070 (5) | 0.37 (3) |
| C17 | 0.8870 (3) | 0.36824 (17) | 0.07825 (6) | 0.0494 (4) | |
| C18 | 0.6762 (3) | 0.36172 (16) | 0.04285 (6) | 0.0491 (4) | |
| H18A | 0.5619 | 0.3312 | 0.0631 | 0.059* | |
| H18B | 0.6882 | 0.2888 | 0.0162 | 0.059* | |
| C19 | 0.6100 (3) | 0.50345 (16) | 0.01626 (6) | 0.0494 (4) | |
| H19A | 0.6069 | 0.5781 | 0.0427 | 0.059* | |
| H19B | 0.7188 | 0.5308 | −0.0060 | 0.059* |
| O1A | 0.047 (3) | 0.085 (4) | 0.138 (8) | −0.023 (2) | −0.033 (4) | 0.071 (4) |
| O1B | 0.052 (3) | 0.028 (2) | 0.073 (4) | −0.0097 (15) | −0.024 (2) | 0.011 (2) |
| N1 | 0.0423 (6) | 0.0333 (6) | 0.0467 (7) | −0.0045 (5) | −0.0037 (5) | 0.0046 (5) |
| N3 | 0.0559 (8) | 0.0299 (6) | 0.0536 (7) | −0.0047 (5) | −0.0074 (6) | 0.0067 (5) |
| N6 | 0.0365 (6) | 0.0308 (6) | 0.0470 (6) | 0.0002 (4) | −0.0071 (5) | 0.0062 (5) |
| N7 | 0.0399 (6) | 0.0269 (5) | 0.0503 (7) | 0.0015 (5) | −0.0079 (5) | 0.0000 (5) |
| N9 | 0.0495 (7) | 0.0310 (6) | 0.0561 (7) | 0.0051 (5) | −0.0108 (6) | 0.0036 (5) |
| C2 | 0.0519 (9) | 0.0325 (7) | 0.0528 (8) | −0.0091 (6) | −0.0060 (7) | 0.0062 (6) |
| C4 | 0.0444 (8) | 0.0292 (6) | 0.0412 (7) | 0.0023 (5) | −0.0023 (6) | 0.0017 (5) |
| C5 | 0.0381 (7) | 0.0280 (6) | 0.0383 (7) | 0.0015 (5) | −0.0002 (6) | −0.0008 (5) |
| C6 | 0.0380 (7) | 0.0290 (6) | 0.0362 (6) | 0.0006 (5) | 0.0007 (6) | 0.0015 (5) |
| C8 | 0.0423 (8) | 0.0341 (7) | 0.0550 (8) | 0.0045 (6) | −0.0101 (7) | −0.0007 (6) |
| C10 | 0.0461 (8) | 0.0357 (7) | 0.0611 (9) | −0.0047 (6) | −0.0131 (7) | 0.0124 (7) |
| C11 | 0.0472 (8) | 0.0303 (6) | 0.0441 (7) | 0.0017 (6) | −0.0019 (6) | 0.0044 (5) |
| C12 | 0.0510 (9) | 0.0398 (8) | 0.0710 (11) | −0.0011 (7) | 0.0017 (8) | 0.0131 (7) |
| C13 | 0.0716 (12) | 0.0437 (9) | 0.0746 (12) | 0.0012 (8) | 0.0155 (10) | 0.0202 (8) |
| C14 | 0.0809 (13) | 0.0479 (9) | 0.0590 (10) | 0.0163 (9) | 0.0061 (9) | 0.0205 (8) |
| C15 | 0.0542 (10) | 0.0617 (11) | 0.0771 (12) | 0.0142 (9) | −0.0059 (9) | 0.0204 (9) |
| C16 | 0.0464 (9) | 0.0455 (8) | 0.0672 (10) | 0.0021 (7) | −0.0019 (8) | 0.0146 (7) |
| O2 | 0.0568 (7) | 0.0461 (6) | 0.0963 (10) | −0.0026 (5) | −0.0264 (7) | 0.0128 (6) |
| O3A | 0.061 (3) | 0.072 (2) | 0.076 (4) | −0.026 (2) | −0.024 (3) | 0.027 (2) |
| O3B | 0.069 (5) | 0.037 (2) | 0.092 (8) | −0.006 (2) | −0.035 (5) | 0.002 (2) |
| C17 | 0.0477 (9) | 0.0428 (8) | 0.0544 (9) | −0.0017 (7) | −0.0073 (7) | 0.0029 (7) |
| C18 | 0.0472 (8) | 0.0408 (8) | 0.0558 (9) | −0.0017 (6) | −0.0071 (7) | −0.0016 (7) |
| C19 | 0.0481 (9) | 0.0411 (8) | 0.0554 (9) | −0.0023 (6) | −0.0070 (7) | 0.0023 (7) |
| O1A—C10 | 1.247 (6) | C12—C13 | 1.378 (2) |
| O1B—C10 | 1.221 (6) | C12—H12 | 0.9300 |
| N1—C6 | 1.3424 (17) | C13—C14 | 1.363 (3) |
| N1—C2 | 1.3489 (17) | C13—H13 | 0.9300 |
| N3—C2 | 1.3125 (19) | C14—C15 | 1.365 (3) |
| N3—C4 | 1.3401 (18) | C14—H14 | 0.9300 |
| N6—C10 | 1.3551 (18) | C15—C16 | 1.390 (2) |
| N6—C6 | 1.3926 (16) | C15—H15 | 0.9300 |
| N6—H6 | 0.8600 | C16—H16 | 0.9300 |
| N7—C8 | 1.3415 (17) | O2—C17 | 1.2923 (18) |
| N7—C5 | 1.3712 (17) | O2—H2A | 0.8200 |
| N7—H7 | 0.8601 | O3A—C17 | 1.230 (4) |
| N9—C8 | 1.3175 (19) | O3B—C17 | 1.223 (6) |
| N9—C4 | 1.3684 (18) | C17—C18 | 1.495 (2) |
| C2—H2 | 0.9300 | C18—C19 | 1.509 (2) |
| C4—C5 | 1.4096 (17) | C18—H18A | 0.9700 |
| C5—C6 | 1.3931 (18) | C18—H18B | 0.9700 |
| C8—H8 | 0.9300 | C19—C19i | 1.506 (3) |
| C10—C11 | 1.4924 (18) | C19—H19A | 0.9700 |
| C11—C16 | 1.376 (2) | C19—H19B | 0.9700 |
| C11—C12 | 1.380 (2) | ||
| C6—N1—C2 | 119.23 (11) | C13—C12—H12 | 119.6 |
| C2—N3—C4 | 112.56 (12) | C11—C12—H12 | 119.6 |
| C10—N6—C6 | 127.77 (11) | C14—C13—C12 | 119.81 (17) |
| C10—N6—H6 | 116.0 | C14—C13—H13 | 120.1 |
| C6—N6—H6 | 116.2 | C12—C13—H13 | 120.1 |
| C8—N7—C5 | 106.82 (11) | C13—C14—C15 | 119.86 (15) |
| C8—N7—H7 | 126.7 | C13—C14—H14 | 120.1 |
| C5—N7—H7 | 126.5 | C15—C14—H14 | 120.1 |
| C8—N9—C4 | 103.90 (11) | C14—C15—C16 | 121.01 (16) |
| N3—C2—N1 | 128.29 (13) | C14—C15—H15 | 119.5 |
| N3—C2—H2 | 115.9 | C16—C15—H15 | 119.5 |
| N1—C2—H2 | 115.9 | C11—C16—C15 | 119.12 (16) |
| N3—C4—N9 | 124.79 (12) | C11—C16—H16 | 120.4 |
| N3—C4—C5 | 124.74 (12) | C15—C16—H16 | 120.4 |
| N9—C4—C5 | 110.47 (12) | C17—O2—H2A | 109.5 |
| N7—C5—C6 | 137.86 (12) | O3B—C17—O2 | 117.6 (6) |
| N7—C5—C4 | 104.56 (11) | O3A—C17—O2 | 120.5 (3) |
| C6—C5—C4 | 117.57 (12) | O3B—C17—C18 | 120.5 (3) |
| N1—C6—N6 | 113.77 (11) | O3A—C17—C18 | 122.7 (2) |
| N1—C6—C5 | 117.61 (11) | O2—C17—C18 | 114.98 (13) |
| N6—C6—C5 | 128.60 (12) | C17—C18—C19 | 114.09 (13) |
| N9—C8—N7 | 114.25 (12) | C17—C18—H18A | 108.7 |
| N9—C8—H8 | 122.9 | C19—C18—H18A | 108.7 |
| N7—C8—H8 | 122.9 | C17—C18—H18B | 108.7 |
| O1B—C10—N6 | 119.4 (5) | C19—C18—H18B | 108.7 |
| O1A—C10—N6 | 120.7 (5) | H18A—C18—H18B | 107.6 |
| O1B—C10—C11 | 120.0 (3) | C19i—C19—C18 | 112.99 (16) |
| O1A—C10—C11 | 117.6 (3) | C19i—C19—H19A | 109.0 |
| N6—C10—C11 | 118.50 (12) | C18—C19—H19A | 109.0 |
| C16—C11—C12 | 119.33 (13) | C19i—C19—H19B | 109.0 |
| C16—C11—C10 | 125.15 (14) | C18—C19—H19B | 109.0 |
| C12—C11—C10 | 115.52 (13) | H19A—C19—H19B | 107.8 |
| C13—C12—C11 | 120.82 (16) | ||
| C4—N3—C2—N1 | 0.6 (3) | C6—N6—C10—O1B | −23.5 (8) |
| C6—N1—C2—N3 | −0.5 (3) | C6—N6—C10—O1A | 13.7 (14) |
| C2—N3—C4—N9 | −179.85 (15) | C6—N6—C10—C11 | 173.08 (14) |
| C2—N3—C4—C5 | −0.1 (2) | O1B—C10—C11—C16 | −138.8 (8) |
| C8—N9—C4—N3 | 179.82 (16) | O1A—C10—C11—C16 | −175.5 (14) |
| C8—N9—C4—C5 | 0.06 (18) | N6—C10—C11—C16 | 24.5 (3) |
| C8—N7—C5—C6 | −179.15 (18) | O1B—C10—C11—C12 | 40.7 (9) |
| C8—N7—C5—C4 | −0.01 (16) | O1A—C10—C11—C12 | 4.0 (14) |
| N3—C4—C5—N7 | −179.79 (15) | N6—C10—C11—C12 | −156.02 (16) |
| N9—C4—C5—N7 | −0.03 (17) | C16—C11—C12—C13 | −2.8 (3) |
| N3—C4—C5—C6 | −0.4 (2) | C10—C11—C12—C13 | 177.68 (17) |
| N9—C4—C5—C6 | 179.31 (13) | C11—C12—C13—C14 | 1.8 (3) |
| C2—N1—C6—N6 | 178.40 (13) | C12—C13—C14—C15 | 0.0 (3) |
| C2—N1—C6—C5 | −0.2 (2) | C13—C14—C15—C16 | −0.7 (3) |
| C10—N6—C6—N1 | −175.34 (15) | C12—C11—C16—C15 | 2.0 (3) |
| C10—N6—C6—C5 | 3.0 (3) | C10—C11—C16—C15 | −178.52 (16) |
| N7—C5—C6—N1 | 179.62 (16) | C14—C15—C16—C11 | −0.3 (3) |
| C4—C5—C6—N1 | 0.6 (2) | O3B—C17—C18—C19 | 26.0 (16) |
| N7—C5—C6—N6 | 1.3 (3) | O3A—C17—C18—C19 | −19.2 (10) |
| C4—C5—C6—N6 | −177.74 (14) | O2—C17—C18—C19 | 176.05 (16) |
| C4—N9—C8—N7 | −0.08 (19) | C17—C18—C19—C19i | −176.11 (18) |
| C5—N7—C8—N9 | 0.06 (19) |
| H··· | ||||
| O2—H2 | 0.82 | 1.92 | 2.7327 (19) | 175 |
| N6—H6···O3 | 0.86 | 2.09 | 2.904 (11) | 157 |
| N7—H7···O1 | 0.86 | 2.04 | 2.616 (16) | 124 |
| N7—H7···N9iv | 0.86 | 2.17 | 2.9271 (17) | 146 |
| C19—H19 | 0.97 | 2.54 | 3.481 (11) | 164 |
| C2—H2··· | 0.93 | 2.94 | 3.4611 (16) | 117 |