| Literature DB >> 22590327 |
Shao-Wei Tong, Wen-Dong Song, Dong-Liang Miao, Jing-Bo An.
Abstract
The title mol-ecule, C(13)H(8)N(4), is is essentially planar [r.m.s. deviation for all non-H atoms = 0.025 (3) Å]. In the crystal, mol-ecules are connected through one weak bifurcated N-H⋯(N,N) hydrogen bond and three π-π stacking inter-actions between pyridine and imidazole rings [centroid-centroid distance = 3.631 (8) Å] and between pyridine and benzene rings [centroid-centroid distances = 3.675 (5) and 3.666 (2) Å].Entities:
Year: 2012 PMID: 22590327 PMCID: PMC3344565 DOI: 10.1107/S1600536812016595
Source DB: PubMed Journal: Acta Crystallogr Sect E Struct Rep Online ISSN: 1600-5368
| C13H8N4 | |
| Orthorhombic, | Mo |
| Hall symbol: -P 2ac 2ab | Cell parameters from 799 reflections |
| θ = 2.2–27.5° | |
| µ = 0.10 mm−1 | |
| Block, yellow | |
| 0.26 × 0.18 × 0.16 mm |
| Bruker APEXII CCD diffractometer | 1756 independent reflections |
| Radiation source: fine-focus sealed tube | 1025 reflections with |
| Graphite monochromator | |
| φ and ω scans | θmax = 25.2°, θmin = 2.4° |
| Absorption correction: multi-scan ( | |
| 5772 measured reflections |
| Refinement on | Primary atom site location: structure-invariant direct methods |
| Least-squares matrix: full | Secondary atom site location: difference Fourier map |
| Hydrogen site location: inferred from neighbouring sites | |
| All H-atom parameters refined | |
| 1756 reflections | (Δ/σ)max < 0.001 |
| 186 parameters | Δρmax = 0.18 e Å−3 |
| 0 restraints | Δρmin = −0.15 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. |
| 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 > 2sigma(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. |
| N2 | 0.08583 (13) | 0.0741 (3) | 0.18218 (11) | 0.0428 (6) | |
| C13 | 0.17857 (16) | 0.0868 (3) | 0.18200 (12) | 0.0349 (6) | |
| C4 | 0.22247 (15) | 0.1620 (3) | 0.25102 (12) | 0.0347 (6) | |
| N1 | 0.16716 (13) | 0.2161 (3) | 0.30974 (10) | 0.0423 (6) | |
| C5 | 0.31923 (15) | 0.1740 (3) | 0.25518 (12) | 0.0355 (6) | |
| N3 | 0.46339 (14) | 0.1051 (3) | 0.17574 (13) | 0.0471 (6) | |
| N4 | 0.39502 (14) | −0.0018 (3) | 0.06803 (11) | 0.0449 (6) | |
| C11 | 0.09449 (19) | −0.0623 (4) | 0.05615 (15) | 0.0487 (7) | |
| C12 | 0.04717 (19) | −0.0004 (3) | 0.12071 (16) | 0.0494 (7) | |
| C3 | 0.20665 (19) | 0.2840 (3) | 0.37251 (14) | 0.0460 (7) | |
| C2 | 0.30087 (18) | 0.3045 (3) | 0.38092 (14) | 0.0439 (7) | |
| C1 | 0.35746 (19) | 0.2504 (3) | 0.32252 (13) | 0.0416 (6) | |
| C6 | 0.37040 (15) | 0.1101 (3) | 0.18996 (12) | 0.0365 (6) | |
| C7 | 0.4727 (2) | 0.0392 (3) | 0.10225 (15) | 0.0514 (7) | |
| C8 | 0.32970 (16) | 0.0437 (3) | 0.12418 (12) | 0.0373 (6) | |
| C9 | 0.23250 (15) | 0.0280 (3) | 0.11878 (12) | 0.0356 (6) | |
| C10 | 0.18762 (19) | −0.0478 (3) | 0.05489 (14) | 0.0445 (7) | |
| H7 | 0.5396 (16) | 0.027 (3) | 0.0759 (12) | 0.042 (6)* | |
| H6 | 0.2264 (16) | −0.088 (3) | 0.0121 (15) | 0.056 (8)* | |
| H4 | −0.0192 (17) | −0.012 (3) | 0.1232 (13) | 0.045 (7)* | |
| H1 | 0.4230 (16) | 0.270 (3) | 0.3229 (13) | 0.051 (8)* | |
| H5 | 0.0590 (16) | −0.125 (3) | 0.0140 (15) | 0.063 (8)* | |
| H3 | 0.1640 (15) | 0.322 (3) | 0.4153 (13) | 0.046 (7)* | |
| H2 | 0.3235 (16) | 0.353 (3) | 0.4266 (14) | 0.053 (7)* | |
| H8 | 0.5057 (19) | 0.136 (4) | 0.2135 (18) | 0.074 (9)* |
| N2 | 0.0304 (12) | 0.0574 (14) | 0.0407 (12) | −0.0012 (10) | −0.0020 (9) | 0.0005 (10) |
| C13 | 0.0326 (13) | 0.0403 (15) | 0.0318 (12) | −0.0009 (11) | −0.0029 (11) | 0.0052 (10) |
| C4 | 0.0343 (13) | 0.0379 (14) | 0.0319 (11) | 0.0024 (12) | 0.0035 (11) | 0.0054 (10) |
| N1 | 0.0396 (12) | 0.0519 (14) | 0.0355 (11) | 0.0021 (10) | 0.0037 (10) | 0.0001 (9) |
| C5 | 0.0350 (14) | 0.0389 (14) | 0.0326 (12) | −0.0016 (11) | −0.0027 (11) | 0.0075 (10) |
| N3 | 0.0308 (12) | 0.0644 (15) | 0.0462 (13) | 0.0046 (11) | −0.0024 (11) | 0.0001 (11) |
| N4 | 0.0334 (12) | 0.0646 (15) | 0.0368 (11) | 0.0021 (11) | 0.0034 (10) | 0.0000 (10) |
| C11 | 0.0435 (17) | 0.0584 (18) | 0.0441 (15) | −0.0023 (14) | −0.0125 (13) | −0.0028 (13) |
| C12 | 0.0326 (15) | 0.0651 (19) | 0.0505 (15) | −0.0029 (14) | −0.0084 (13) | −0.0022 (13) |
| C3 | 0.0488 (17) | 0.0546 (18) | 0.0346 (14) | 0.0041 (13) | 0.0018 (12) | −0.0029 (11) |
| C2 | 0.0511 (17) | 0.0462 (16) | 0.0344 (13) | −0.0027 (13) | −0.0045 (12) | −0.0036 (11) |
| C1 | 0.0403 (15) | 0.0443 (15) | 0.0403 (14) | −0.0014 (13) | −0.0053 (13) | 0.0029 (11) |
| C6 | 0.0305 (13) | 0.0445 (15) | 0.0344 (12) | 0.0013 (11) | 0.0015 (10) | 0.0047 (11) |
| C7 | 0.0401 (17) | 0.0647 (19) | 0.0495 (15) | 0.0122 (15) | 0.0068 (14) | 0.0010 (13) |
| C8 | 0.0335 (14) | 0.0447 (16) | 0.0338 (12) | 0.0021 (12) | 0.0013 (11) | 0.0039 (10) |
| C9 | 0.0375 (14) | 0.0372 (14) | 0.0321 (12) | 0.0020 (11) | −0.0006 (10) | 0.0048 (10) |
| C10 | 0.0471 (17) | 0.0518 (17) | 0.0346 (13) | 0.0026 (14) | −0.0025 (12) | 0.0009 (11) |
| N2—C12 | 1.326 (3) | C11—C10 | 1.362 (4) |
| N2—C13 | 1.355 (3) | C11—C12 | 1.387 (4) |
| C13—C9 | 1.411 (3) | C11—H5 | 1.01 (3) |
| C13—C4 | 1.464 (3) | C12—H4 | 0.97 (2) |
| C4—N1 | 1.353 (3) | C3—C2 | 1.390 (4) |
| C4—C5 | 1.415 (3) | C3—H3 | 1.00 (2) |
| N1—C3 | 1.327 (3) | C2—C1 | 1.360 (3) |
| C5—C1 | 1.410 (3) | C2—H2 | 0.93 (2) |
| C5—C6 | 1.429 (3) | C1—H1 | 0.97 (2) |
| N3—C7 | 1.362 (3) | C6—C8 | 1.372 (3) |
| N3—C6 | 1.377 (3) | C7—H7 | 1.08 (2) |
| N3—H8 | 0.92 (3) | C8—C9 | 1.424 (3) |
| N4—C7 | 1.314 (3) | C9—C10 | 1.403 (3) |
| N4—C8 | 1.396 (3) | C10—H6 | 0.98 (3) |
| C12—N2—C13 | 117.0 (2) | C2—C3—H3 | 120.2 (13) |
| N2—C13—C9 | 122.2 (2) | C1—C2—C3 | 119.2 (2) |
| N2—C13—C4 | 117.63 (19) | C1—C2—H2 | 121.8 (15) |
| C9—C13—C4 | 120.2 (2) | C3—C2—H2 | 119.0 (15) |
| N1—C4—C5 | 122.4 (2) | C2—C1—C5 | 119.3 (2) |
| N1—C4—C13 | 117.4 (2) | C2—C1—H1 | 123.0 (14) |
| C5—C4—C13 | 120.16 (19) | C5—C1—H1 | 117.5 (14) |
| C3—N1—C4 | 117.7 (2) | C8—C6—N3 | 105.7 (2) |
| C1—C5—C4 | 117.6 (2) | C8—C6—C5 | 122.9 (2) |
| C1—C5—C6 | 125.2 (2) | N3—C6—C5 | 131.3 (2) |
| C4—C5—C6 | 117.2 (2) | N4—C7—N3 | 114.5 (2) |
| C7—N3—C6 | 105.7 (2) | N4—C7—H7 | 124.9 (11) |
| C7—N3—H8 | 132.4 (17) | N3—C7—H7 | 120.5 (11) |
| C6—N3—H8 | 121.7 (17) | C6—C8—N4 | 111.3 (2) |
| C7—N4—C8 | 102.7 (2) | C6—C8—C9 | 121.0 (2) |
| C10—C11—C12 | 118.6 (2) | N4—C8—C9 | 127.7 (2) |
| C10—C11—H5 | 122.6 (13) | C10—C9—C13 | 118.2 (2) |
| C12—C11—H5 | 118.7 (13) | C10—C9—C8 | 123.4 (2) |
| N2—C12—C11 | 124.8 (2) | C13—C9—C8 | 118.4 (2) |
| N2—C12—H4 | 115.4 (14) | C11—C10—C9 | 119.2 (2) |
| C11—C12—H4 | 119.7 (14) | C11—C10—H6 | 124.2 (14) |
| N1—C3—C2 | 123.9 (2) | C9—C10—H6 | 116.6 (14) |
| N1—C3—H3 | 115.9 (13) |
| H··· | ||||
| N3—H8···N1i | 0.92 (3) | 2.47 (3) | 3.104 (3) | 126 (2) |
| N3—H8···N2i | 0.92 (3) | 2.18 (3) | 3.017 (3) | 150 (2) |
Hydrogen-bond geometry (Å, °)
| H⋯ | ||||
|---|---|---|---|---|
| N3—H8⋯N1i | 0.92 (3) | 2.47 (3) | 3.104 (3) | 126 (2) |
| N3—H8⋯N2i | 0.92 (3) | 2.18 (3) | 3.017 (3) | 150 (2) |
Symmetry code: (i) .