| Literature DB >> 28316815 |
Robert Swinton Darious1, Packianathan Thomas Muthiah1, Franc Perdih2.
Abstract
The asymmetric unit of the title co-crystal, C12H9N5O·C7H6O3, contains one mol-ecule of N6-benzoyl-adenine (BA) and one mol-ecule of 4-hy-droxy-benzoic acid (HBA). The N6-benzoyl-adenine (BA) has an N(7)-H tautomeric form with nonprotonated N-1 and N-3 atoms. This tautomeric form is stabilized by a typical intra-molecular N-H⋯O hydrogen bond between the carbonyl (C=O) group and the N(7)-H hydrogen on the Hoogsteen face of the purine ring, forming a graph-set S(7) ring motif. The primary robust R22(8) ring motif is formed in the Watson-Crick face via N-H⋯O and O-H⋯N hydrogen bonds (involving N1, N6-H and the carboxyl group of HBA). Weak inter-actions, such as, C-H⋯π and π-π are also observed in this crystal structure.Entities:
Keywords: coplanar; crystal structure; dihedral angle; hydrogen bond; supramolecular interaction
Year: 2017 PMID: 28316815 PMCID: PMC5347060 DOI: 10.1107/S2056989017002171
Source DB: PubMed Journal: Acta Crystallogr E Crystallogr Commun
Figure 1The asymmetric unit of the title compound, showing the atom-numbering scheme. Displacement ellipsoids are drawn at the 50% probability level. Dashed lines represent hydrogen bonds.
Hydrogen-bond geometry (Å, °)
Cg3 is the centroid of the C11–C16 phenyl ring.
|
|
| H⋯ |
|
|
|---|---|---|---|---|
| O2—H2 | 0.82 | 1.92 | 2.737 (2) | 172 |
| O4—H4⋯N9i | 0.82 | 1.98 | 2.784 (2) | 168 |
| N6—H6⋯O3 | 0.86 | 1.94 | 2.778 (2) | 166 |
| N7—H7⋯O1 | 0.86 | 2.14 | 2.726 (2) | 126 |
| N7—H7⋯O1ii | 0.86 | 2.36 | 3.164 (2) | 155 |
| C8—H8⋯ | 0.93 | 2.77 | 3.646 (2) | 157 |
Symmetry codes: (i) ; (ii) .
Comparison of dihedral angles and torsion angles (°) for various N 6-benzoyladenine-containing crystal structures
Pyrimidine ring: N1/C2/N3/C4–C6; imidazole ring of adenine: C4/C5/N7/C8/N9; purine ring system: N1/C2/N3/C4–C6/N7/C8/N9; benzene ring: C11–C16; amide: N6/H6/C10/O1.
| Compound | pyrimidine/imidazole | purine/benzene | purine/amide | benzene/amide | C6—N6—C10—C11 |
|---|---|---|---|---|---|
|
| 2.26 (10) | 9.77 (8) | 2.93 (18) | 11.35 (9) | −179.08 (17) |
|
| 3.00 (9) | 0.94 (8) | 21.20 (17) | 21.45 (18) | −176.24 (16) |
|
| 1.34 (14) | 52.25 (12) | 23.7 (2) | 29.2 (2) | −168.8 (2) |
|
| 0.33 (8) | 26.71 (7) | 10.8 (7) | 23.0 (7) | 173.08 (14) |
|
| 0.24 (12) | 70.80 (11) | 11.71 (19) | 59.4 (2) | −177.91 (18) |
References: (a) Karthikeyan et al. (2015 ▸); (b) Karthikeyan et al. (2016 ▸); (c) Swinton Darious et al. (2016 ▸); (d) this study.
Figure 2The formation of a supramolecular three-dimensional large ring structure in the title compound.
Figure 3A view of the homo/hetero-stacking interactions in the title compound.
Experimental details
| Crystal data | |
| Chemical formula | C12H9N5O·C7H6O3 |
|
| 377.36 |
| Crystal system, space group | Monoclinic, |
| Temperature (K) | 293 |
|
| 14.7579 (5), 6.7930 (3), 17.2873 (5) |
| β (°) | 91.287 (3) |
|
| 1732.62 (11) |
|
| 4 |
| Radiation type | Cu |
| μ (mm−1) | 0.88 |
| Crystal size (mm) | 0.20 × 0.15 × 0.03 |
| Data collection | |
| Diffractometer | Agilent SuperNova, Dual, Cu at zero, Atlas |
| Absorption correction | Multi-scan ( |
|
| 0.597, 1.000 |
| No. of measured, independent and observed [ | 6790, 3284, 2457 |
|
| 0.028 |
| (sin θ/λ)max (Å−1) | 0.610 |
| Refinement | |
|
| 0.053, 0.161, 1.02 |
| No. of reflections | 3284 |
| No. of parameters | 256 |
| H-atom treatment | H-atom parameters constrained |
| Δρmax, Δρmin (e Å−3) | 0.44, −0.30 |
Computer programs: CrysAlis PRO (Agilent, 2013 ▸), SUPERFLIP (Palatinus & Chapuis, 2007 ▸), SHELXL2014 (Sheldrick, 2015 ▸), PLATON (Spek, 2009 ▸) and Mercury (Macrae et al., 2008 ▸).
| C12H9N5O·C7H6O3 | |
| Monoclinic, | Cu |
| Cell parameters from 2120 reflections | |
| θ = 3.9–74.6° | |
| µ = 0.88 mm−1 | |
| β = 91.287 (3)° | |
| Plate, colorless | |
| 0.20 × 0.15 × 0.03 mm |
| Agilent SuperNova, Dual, Cu at zero, Atlas diffractometer | 3284 independent reflections |
| Radiation source: SuperNova (Cu) X-ray Source | 2457 reflections with |
| Detector resolution: 10.4933 pixels mm-1 | |
| ω scans | θmax = 70.1°, θmin = 3.9° |
| Absorption correction: multi-scan (CrysAlis PRO; Agilent, 2013) | |
| 6790 measured reflections |
| Refinement on | Hydrogen site location: inferred from neighbouring sites |
| Least-squares matrix: full | H-atom parameters constrained |
| (Δ/σ)max < 0.001 | |
| Δρmax = 0.44 e Å−3 | |
| 3284 reflections | Δρmin = −0.30 e Å−3 |
| 256 parameters | Extinction correction: SHELXL2014 (Sheldrick, 2015), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4 |
| 0 restraints | Extinction coefficient: 0.0007 (2) |
| 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 | 0.42682 (11) | 1.0650 (3) | 0.54392 (9) | 0.0705 (6) | |
| N1 | 0.39444 (11) | 0.9505 (3) | 0.78054 (9) | 0.0441 (4) | |
| N3 | 0.54449 (12) | 0.9582 (3) | 0.83693 (10) | 0.0507 (5) | |
| N6 | 0.35504 (10) | 0.9706 (2) | 0.65248 (9) | 0.0398 (4) | |
| H6 | 0.3024 | 0.9381 | 0.6686 | 0.048* | |
| N7 | 0.57481 (11) | 0.9980 (3) | 0.63742 (10) | 0.0428 (4) | |
| H7 | 0.5598 | 1.0053 | 0.5892 | 0.051* | |
| N9 | 0.66312 (11) | 0.9887 (3) | 0.74394 (11) | 0.0466 (4) | |
| C2 | 0.45586 (14) | 0.9466 (4) | 0.84004 (12) | 0.0522 (6) | |
| H2 | 0.4322 | 0.9340 | 0.8892 | 0.063* | |
| C4 | 0.57400 (13) | 0.9747 (3) | 0.76459 (12) | 0.0402 (4) | |
| C6 | 0.42445 (13) | 0.9683 (3) | 0.70853 (11) | 0.0362 (4) | |
| C5 | 0.51711 (12) | 0.9806 (3) | 0.69794 (11) | 0.0357 (4) | |
| C8 | 0.65938 (13) | 1.0017 (3) | 0.66780 (13) | 0.0473 (5) | |
| H8 | 0.7107 | 1.0125 | 0.6378 | 0.057* | |
| C10 | 0.35828 (13) | 1.0163 (3) | 0.57653 (12) | 0.0430 (5) | |
| C11 | 0.26848 (13) | 1.0088 (3) | 0.53510 (11) | 0.0448 (5) | |
| C12 | 0.21996 (19) | 0.8373 (5) | 0.53086 (16) | 0.0774 (8) | |
| H12 | 0.2415 | 0.7252 | 0.5561 | 0.093* | |
| C13 | 0.1393 (2) | 0.8303 (7) | 0.4892 (2) | 0.1083 (14) | |
| H13 | 0.1075 | 0.7124 | 0.4847 | 0.130* | |
| C14 | 0.1062 (2) | 0.9956 (7) | 0.45466 (18) | 0.0950 (13) | |
| H14 | 0.0510 | 0.9908 | 0.4277 | 0.114* | |
| C15 | 0.15326 (18) | 1.1700 (6) | 0.45909 (15) | 0.0828 (10) | |
| H15 | 0.1297 | 1.2828 | 0.4356 | 0.099* | |
| C16 | 0.23613 (16) | 1.1771 (4) | 0.49876 (14) | 0.0621 (6) | |
| H16 | 0.2694 | 1.2933 | 0.5009 | 0.075* | |
| O2 | 0.22103 (10) | 0.9691 (3) | 0.83296 (9) | 0.0563 (4) | |
| H2A | 0.2718 | 0.9530 | 0.8157 | 0.084* | |
| O3 | 0.18126 (10) | 0.9349 (4) | 0.70936 (9) | 0.0734 (6) | |
| O4 | −0.20332 (10) | 1.0061 (3) | 0.86009 (10) | 0.0608 (5) | |
| H4 | −0.2373 | 0.9926 | 0.8223 | 0.091* | |
| C17 | 0.15996 (13) | 0.9583 (3) | 0.77584 (11) | 0.0409 (4) | |
| C18 | 0.06559 (12) | 0.9737 (3) | 0.79947 (11) | 0.0366 (4) | |
| C19 | 0.04097 (14) | 1.0009 (3) | 0.87579 (11) | 0.0435 (5) | |
| H19 | 0.0857 | 1.0112 | 0.9143 | 0.052* | |
| C20 | −0.04879 (14) | 1.0128 (4) | 0.89506 (12) | 0.0499 (5) | |
| H20 | −0.0643 | 1.0314 | 0.9464 | 0.060* | |
| C21 | −0.11692 (13) | 0.9970 (3) | 0.83780 (12) | 0.0425 (5) | |
| C22 | −0.09232 (13) | 0.9722 (3) | 0.76111 (12) | 0.0437 (5) | |
| H22 | −0.1368 | 0.9637 | 0.7223 | 0.052* | |
| C23 | −0.00281 (13) | 0.9602 (3) | 0.74278 (12) | 0.0433 (5) | |
| H23 | 0.0127 | 0.9427 | 0.6914 | 0.052* |
| O1 | 0.0375 (9) | 0.1294 (16) | 0.0446 (8) | −0.0059 (9) | −0.0021 (6) | 0.0179 (9) |
| N1 | 0.0314 (8) | 0.0663 (11) | 0.0343 (8) | 0.0027 (7) | −0.0060 (6) | −0.0018 (7) |
| N3 | 0.0361 (9) | 0.0755 (12) | 0.0400 (9) | 0.0026 (8) | −0.0107 (7) | −0.0030 (8) |
| N6 | 0.0240 (8) | 0.0597 (10) | 0.0353 (8) | −0.0021 (6) | −0.0076 (6) | 0.0019 (7) |
| N7 | 0.0287 (8) | 0.0592 (10) | 0.0403 (9) | −0.0002 (7) | −0.0034 (6) | 0.0011 (7) |
| N9 | 0.0264 (8) | 0.0624 (11) | 0.0503 (10) | 0.0015 (7) | −0.0087 (7) | −0.0032 (8) |
| C2 | 0.0379 (11) | 0.0841 (16) | 0.0344 (9) | 0.0035 (10) | −0.0064 (8) | −0.0016 (10) |
| C4 | 0.0302 (10) | 0.0476 (10) | 0.0424 (10) | 0.0019 (7) | −0.0097 (7) | −0.0034 (8) |
| C6 | 0.0296 (9) | 0.0430 (10) | 0.0355 (9) | 0.0010 (7) | −0.0078 (7) | −0.0021 (7) |
| C5 | 0.0302 (9) | 0.0401 (9) | 0.0365 (9) | 0.0011 (7) | −0.0061 (7) | −0.0012 (7) |
| C8 | 0.0259 (10) | 0.0649 (13) | 0.0511 (12) | 0.0005 (8) | −0.0012 (8) | 0.0007 (10) |
| C10 | 0.0301 (10) | 0.0615 (12) | 0.0372 (10) | 0.0017 (8) | −0.0048 (7) | 0.0011 (9) |
| C11 | 0.0311 (10) | 0.0710 (13) | 0.0320 (9) | 0.0012 (9) | −0.0061 (7) | 0.0023 (9) |
| C12 | 0.0706 (17) | 0.0902 (19) | 0.0699 (16) | −0.0204 (15) | −0.0324 (13) | 0.0151 (15) |
| C13 | 0.086 (2) | 0.150 (3) | 0.086 (2) | −0.053 (2) | −0.0499 (18) | 0.030 (2) |
| C14 | 0.0481 (15) | 0.182 (4) | 0.0536 (15) | −0.0141 (19) | −0.0213 (12) | 0.0164 (19) |
| C15 | 0.0563 (15) | 0.135 (3) | 0.0564 (14) | 0.0353 (18) | −0.0098 (11) | 0.0172 (17) |
| C16 | 0.0517 (13) | 0.0784 (16) | 0.0558 (12) | 0.0135 (12) | −0.0075 (10) | 0.0073 (12) |
| O2 | 0.0294 (7) | 0.0975 (12) | 0.0416 (8) | −0.0001 (7) | −0.0052 (6) | −0.0040 (8) |
| O3 | 0.0339 (8) | 0.1439 (18) | 0.0425 (8) | −0.0016 (9) | −0.0009 (6) | −0.0160 (10) |
| O4 | 0.0290 (8) | 0.1037 (14) | 0.0497 (9) | 0.0011 (7) | −0.0003 (6) | −0.0057 (9) |
| C17 | 0.0317 (10) | 0.0510 (11) | 0.0398 (10) | −0.0015 (8) | −0.0052 (7) | −0.0014 (8) |
| C18 | 0.0308 (10) | 0.0403 (9) | 0.0383 (9) | −0.0009 (7) | −0.0051 (7) | 0.0018 (7) |
| C19 | 0.0332 (10) | 0.0621 (12) | 0.0350 (9) | −0.0004 (8) | −0.0078 (7) | 0.0008 (8) |
| C20 | 0.0349 (10) | 0.0822 (15) | 0.0324 (9) | 0.0006 (10) | −0.0023 (8) | 0.0000 (10) |
| C21 | 0.0294 (10) | 0.0540 (11) | 0.0439 (10) | −0.0002 (8) | −0.0034 (8) | 0.0009 (9) |
| C22 | 0.0330 (10) | 0.0578 (12) | 0.0397 (10) | 0.0009 (8) | −0.0092 (7) | −0.0036 (9) |
| C23 | 0.0346 (10) | 0.0602 (12) | 0.0349 (9) | 0.0014 (8) | −0.0060 (7) | −0.0029 (9) |
| O1—C10 | 1.215 (3) | C13—H13 | 0.9300 |
| N1—C6 | 1.336 (3) | C14—C15 | 1.375 (5) |
| N1—C2 | 1.356 (2) | C14—H14 | 0.9300 |
| N3—C2 | 1.313 (3) | C15—C16 | 1.389 (3) |
| N3—C4 | 1.338 (3) | C15—H15 | 0.9300 |
| N6—C10 | 1.351 (3) | C16—H16 | 0.9300 |
| N6—C6 | 1.394 (2) | O2—C17 | 1.324 (2) |
| N6—H6 | 0.8600 | O2—H2A | 0.8200 |
| N7—C8 | 1.343 (2) | O3—C17 | 1.209 (3) |
| N7—C5 | 1.369 (3) | O4—C21 | 1.342 (3) |
| N7—H7 | 0.8600 | O4—H4 | 0.8200 |
| N9—C8 | 1.319 (3) | C17—C18 | 1.464 (3) |
| N9—C4 | 1.374 (3) | C18—C19 | 1.389 (3) |
| C2—H2 | 0.9300 | C18—C23 | 1.394 (2) |
| C4—C5 | 1.411 (2) | C19—C20 | 1.376 (3) |
| C6—C5 | 1.386 (3) | C19—H19 | 0.9300 |
| C8—H8 | 0.9300 | C20—C21 | 1.399 (3) |
| C10—C11 | 1.493 (3) | C20—H20 | 0.9300 |
| C11—C12 | 1.369 (4) | C21—C22 | 1.393 (3) |
| C11—C16 | 1.384 (3) | C22—C23 | 1.368 (3) |
| C12—C13 | 1.379 (3) | C22—H22 | 0.9300 |
| C12—H12 | 0.9300 | C23—H23 | 0.9300 |
| C13—C14 | 1.357 (5) | ||
| C6—N1—C2 | 118.60 (18) | C14—C13—H13 | 120.0 |
| C2—N3—C4 | 112.88 (17) | C12—C13—H13 | 120.0 |
| C10—N6—C6 | 129.53 (17) | C13—C14—C15 | 120.8 (3) |
| C10—N6—H6 | 115.2 | C13—C14—H14 | 119.6 |
| C6—N6—H6 | 115.2 | C15—C14—H14 | 119.6 |
| C8—N7—C5 | 106.93 (17) | C14—C15—C16 | 119.7 (3) |
| C8—N7—H7 | 126.5 | C14—C15—H15 | 120.2 |
| C5—N7—H7 | 126.5 | C16—C15—H15 | 120.2 |
| C8—N9—C4 | 104.19 (16) | C11—C16—C15 | 119.1 (3) |
| N3—C2—N1 | 128.1 (2) | C11—C16—H16 | 120.4 |
| N3—C2—H2 | 115.9 | C15—C16—H16 | 120.4 |
| N1—C2—H2 | 115.9 | C17—O2—H2A | 109.5 |
| N3—C4—N9 | 125.60 (17) | C21—O4—H4 | 109.5 |
| N3—C4—C5 | 124.43 (18) | O3—C17—O2 | 121.96 (18) |
| N9—C4—C5 | 109.97 (18) | O3—C17—C18 | 122.96 (17) |
| N1—C6—C5 | 118.50 (16) | O2—C17—C18 | 115.08 (18) |
| N1—C6—N6 | 113.25 (17) | C19—C18—C23 | 118.42 (18) |
| C5—C6—N6 | 128.25 (18) | C19—C18—C17 | 123.06 (17) |
| N7—C5—C6 | 137.61 (17) | C23—C18—C17 | 118.53 (18) |
| N7—C5—C4 | 104.93 (16) | C20—C19—C18 | 120.79 (18) |
| C6—C5—C4 | 117.46 (18) | C20—C19—H19 | 119.6 |
| N9—C8—N7 | 113.98 (18) | C18—C19—H19 | 119.6 |
| N9—C8—H8 | 123.0 | C19—C20—C21 | 120.3 (2) |
| N7—C8—H8 | 123.0 | C19—C20—H20 | 119.8 |
| O1—C10—N6 | 124.15 (18) | C21—C20—H20 | 119.8 |
| O1—C10—C11 | 121.74 (18) | O4—C21—C22 | 123.28 (18) |
| N6—C10—C11 | 114.07 (17) | O4—C21—C20 | 117.8 (2) |
| C12—C11—C16 | 120.3 (2) | C22—C21—C20 | 118.97 (19) |
| C12—C11—C10 | 120.8 (2) | C23—C22—C21 | 120.10 (17) |
| C16—C11—C10 | 118.9 (2) | C23—C22—H22 | 119.9 |
| C11—C12—C13 | 120.1 (3) | C21—C22—H22 | 119.9 |
| C11—C12—H12 | 119.9 | C22—C23—C18 | 121.40 (19) |
| C13—C12—H12 | 119.9 | C22—C23—H23 | 119.3 |
| C14—C13—C12 | 119.9 (3) | C18—C23—H23 | 119.3 |
| C4—N3—C2—N1 | −0.4 (4) | N6—C10—C11—C12 | −60.8 (3) |
| C6—N1—C2—N3 | 0.0 (4) | O1—C10—C11—C16 | −56.9 (3) |
| C2—N3—C4—N9 | −179.7 (2) | N6—C10—C11—C16 | 121.2 (2) |
| C2—N3—C4—C5 | 0.4 (3) | C16—C11—C12—C13 | 1.1 (5) |
| C8—N9—C4—N3 | 179.9 (2) | C10—C11—C12—C13 | −176.8 (3) |
| C8—N9—C4—C5 | −0.2 (2) | C11—C12—C13—C14 | −2.4 (6) |
| C2—N1—C6—C5 | 0.4 (3) | C12—C13—C14—C15 | 1.6 (6) |
| C2—N1—C6—N6 | −179.98 (19) | C13—C14—C15—C16 | 0.6 (5) |
| C10—N6—C6—N1 | 168.6 (2) | C12—C11—C16—C15 | 1.0 (4) |
| C10—N6—C6—C5 | −11.9 (3) | C10—C11—C16—C15 | 179.0 (2) |
| C8—N7—C5—C6 | −179.9 (2) | C14—C15—C16—C11 | −1.9 (4) |
| C8—N7—C5—C4 | 0.0 (2) | O3—C17—C18—C19 | −179.9 (2) |
| N1—C6—C5—N7 | 179.6 (2) | O2—C17—C18—C19 | 1.0 (3) |
| N6—C6—C5—N7 | 0.0 (4) | O3—C17—C18—C23 | 0.2 (3) |
| N1—C6—C5—C4 | −0.4 (3) | O2—C17—C18—C23 | −178.92 (19) |
| N6—C6—C5—C4 | −179.93 (18) | C23—C18—C19—C20 | 0.5 (3) |
| N3—C4—C5—N7 | 179.99 (19) | C17—C18—C19—C20 | −179.43 (19) |
| N9—C4—C5—N7 | 0.1 (2) | C18—C19—C20—C21 | 0.2 (3) |
| N3—C4—C5—C6 | 0.0 (3) | C19—C20—C21—O4 | 178.8 (2) |
| N9—C4—C5—C6 | −179.93 (16) | C19—C20—C21—C22 | −1.0 (3) |
| C4—N9—C8—N7 | 0.2 (2) | O4—C21—C22—C23 | −178.7 (2) |
| C5—N7—C8—N9 | −0.2 (2) | C20—C21—C22—C23 | 1.1 (3) |
| C6—N6—C10—O1 | 0.1 (4) | C21—C22—C23—C18 | −0.4 (3) |
| C6—N6—C10—C11 | −177.92 (19) | C19—C18—C23—C22 | −0.3 (3) |
| O1—C10—C11—C12 | 121.1 (3) | C17—C18—C23—C22 | 179.55 (19) |
| H··· | ||||
| O2—H2 | 0.82 | 1.92 | 2.737 (2) | 172 |
| O4—H4···N9i | 0.82 | 1.98 | 2.784 (2) | 168 |
| N6—H6···O3 | 0.86 | 1.94 | 2.778 (2) | 166 |
| N7—H7···O1 | 0.86 | 2.14 | 2.726 (2) | 126 |
| N7—H7···O1ii | 0.86 | 2.36 | 3.164 (2) | 155 |
| C8—H8··· | 0.93 | 2.77 | 3.646 (2) | 157 |