| Literature DB >> 21754444 |
Rafael Mendoza-Meroño1, Laura Menéndez-Taboada, Eva Fernández-Zapico, Santiago García-Granda.
Abstract
In the title compound, C(13)H(12)N(4)O, the semicarbazone fragment links a benzene and a pyridine ring in the structure. The crystal packing is stabilized by strong inter-molecular N-H⋯O hydrogen bonds, which connect two mol-ecules to form a synthon unit, and by N-H⋯N hydrogen bonds and weak C-H⋯π inter-actions. The mol-ecular conformation is stabil-ized by intra-molecular N-H⋯N and C-H⋯O inter-actions.Entities:
Year: 2011 PMID: 21754444 PMCID: PMC3089140 DOI: 10.1107/S1600536811013134
Source DB: PubMed Journal: Acta Crystallogr Sect E Struct Rep Online ISSN: 1600-5368
| C13H12N4O | |
| Monoclinic, | Melting point: 493.15 K |
| Hall symbol: -P 2ybc | Cu |
| Cell parameters from 2114 reflections | |
| θ = 3.5–70.7° | |
| µ = 0.72 mm−1 | |
| β = 100.744 (6)° | |
| Rod, white | |
| 0.30 × 0.11 × 0.06 mm |
| Oxford Diffraction Xcalibur Gemini R diffractometer | 2310 independent reflections |
| Radiation source: Enhance (Cu) X-ray Source | 1702 reflections with |
| graphite | |
| Detector resolution: 10.2673 pixels mm-1 | θmax = 70.8°, θmin = 4.9° |
| ω scans | |
| Absorption correction: multi-scan (ABSPACK in | |
| 7257 measured reflections |
| Refinement on | Secondary atom site location: difference Fourier map |
| Least-squares matrix: full | Hydrogen site location: inferred from neighbouring sites |
| H atoms treated by a mixture of independent and constrained refinement | |
| (Δ/σ)max < 0.001 | |
| 2310 reflections | Δρmax = 0.20 e Å−3 |
| 176 parameters | Δρmin = −0.17 e Å−3 |
| 0 restraints | Extinction correction: |
| Primary atom site location: structure-invariant direct methods | Extinction coefficient: 0.0051 (8) |
| 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. |
| O1 | 0.31018 (14) | 0.04113 (16) | 0.96710 (10) | 0.0562 (4) | |
| N2 | 0.47959 (17) | −0.03751 (17) | 0.75432 (12) | 0.0474 (4) | |
| N3 | 0.45910 (18) | −0.01377 (19) | 0.85540 (13) | 0.0524 (5) | |
| N4 | 0.23363 (17) | 0.07764 (18) | 0.78923 (13) | 0.0478 (4) | |
| N1 | 0.7010 (2) | −0.1407 (2) | 0.43544 (14) | 0.0619 (5) | |
| C7 | 0.3301 (2) | 0.0358 (2) | 0.87508 (14) | 0.0443 (5) | |
| C4 | 0.5324 (2) | −0.1475 (2) | 0.55575 (16) | 0.0505 (5) | |
| H4 | 0.4383 | −0.1666 | 0.5665 | 0.061* | |
| C3 | 0.5689 (2) | −0.1643 (2) | 0.45723 (16) | 0.0557 (5) | |
| H3 | 0.4964 | −0.1940 | 0.4024 | 0.067* | |
| C8 | 0.0926 (2) | 0.1288 (2) | 0.79070 (15) | 0.0467 (5) | |
| C5 | 0.6378 (2) | −0.1016 (2) | 0.63847 (15) | 0.0466 (5) | |
| C9 | 0.0279 (2) | 0.2034 (2) | 0.70528 (16) | 0.0551 (5) | |
| H9 | 0.0782 | 0.2193 | 0.6502 | 0.066* | |
| C6 | 0.6074 (2) | −0.0739 (2) | 0.74389 (16) | 0.0489 (5) | |
| C13 | 0.0161 (2) | 0.1054 (2) | 0.87145 (16) | 0.0575 (6) | |
| H13 | 0.0572 | 0.0541 | 0.9289 | 0.069* | |
| C10 | −0.1102 (3) | 0.2545 (3) | 0.70086 (19) | 0.0672 (7) | |
| H10 | −0.1528 | 0.3038 | 0.6425 | 0.081* | |
| C2 | 0.8014 (2) | −0.0989 (3) | 0.51620 (18) | 0.0657 (6) | |
| H2 | 0.8949 | −0.0817 | 0.5034 | 0.079* | |
| C1 | 0.7765 (2) | −0.0794 (2) | 0.61736 (17) | 0.0571 (6) | |
| H1 | 0.8519 | −0.0516 | 0.6709 | 0.069* | |
| C12 | −0.1218 (2) | 0.1586 (3) | 0.86654 (19) | 0.0687 (7) | |
| H12 | −0.1722 | 0.1434 | 0.9216 | 0.082* | |
| C11 | −0.1858 (3) | 0.2335 (3) | 0.7820 (2) | 0.0712 (7) | |
| H11 | −0.2783 | 0.2692 | 0.7796 | 0.085* | |
| H6 | 0.686 (2) | −0.083 (2) | 0.8069 (17) | 0.058 (6)* | |
| H3N | 0.533 (3) | −0.031 (2) | 0.9132 (19) | 0.065 (7)* | |
| H4N | 0.266 (2) | 0.080 (2) | 0.7265 (18) | 0.053 (6)* |
| O1 | 0.0482 (8) | 0.0824 (11) | 0.0385 (7) | 0.0050 (7) | 0.0096 (6) | −0.0017 (7) |
| N2 | 0.0489 (9) | 0.0571 (10) | 0.0367 (8) | 0.0029 (7) | 0.0089 (7) | −0.0020 (7) |
| N3 | 0.0444 (9) | 0.0765 (13) | 0.0358 (8) | 0.0107 (8) | 0.0066 (7) | −0.0017 (8) |
| N4 | 0.0439 (9) | 0.0619 (11) | 0.0388 (8) | 0.0066 (7) | 0.0110 (7) | 0.0011 (7) |
| N1 | 0.0681 (12) | 0.0707 (13) | 0.0507 (10) | 0.0103 (9) | 0.0212 (9) | 0.0032 (9) |
| C7 | 0.0430 (10) | 0.0525 (12) | 0.0373 (10) | −0.0012 (8) | 0.0076 (7) | −0.0035 (8) |
| C4 | 0.0517 (11) | 0.0529 (12) | 0.0482 (11) | 0.0021 (9) | 0.0124 (9) | −0.0005 (9) |
| C3 | 0.0614 (13) | 0.0577 (14) | 0.0473 (12) | 0.0047 (10) | 0.0081 (9) | −0.0026 (9) |
| C8 | 0.0447 (10) | 0.0521 (12) | 0.0437 (10) | 0.0019 (8) | 0.0092 (8) | −0.0038 (8) |
| C5 | 0.0484 (10) | 0.0497 (12) | 0.0423 (10) | 0.0084 (8) | 0.0103 (8) | 0.0044 (8) |
| C9 | 0.0580 (12) | 0.0613 (14) | 0.0472 (11) | 0.0101 (10) | 0.0127 (9) | 0.0036 (10) |
| C6 | 0.0430 (10) | 0.0603 (13) | 0.0428 (10) | 0.0061 (9) | 0.0065 (8) | 0.0024 (9) |
| C13 | 0.0521 (11) | 0.0751 (16) | 0.0479 (11) | 0.0077 (10) | 0.0159 (9) | 0.0106 (10) |
| C10 | 0.0679 (14) | 0.0759 (17) | 0.0579 (14) | 0.0233 (11) | 0.0116 (11) | 0.0102 (11) |
| C2 | 0.0568 (13) | 0.0857 (18) | 0.0597 (13) | 0.0021 (11) | 0.0239 (11) | 0.0007 (12) |
| C1 | 0.0464 (11) | 0.0726 (15) | 0.0530 (12) | 0.0040 (10) | 0.0105 (9) | −0.0012 (10) |
| C12 | 0.0568 (13) | 0.0924 (19) | 0.0611 (14) | 0.0139 (12) | 0.0219 (10) | 0.0058 (13) |
| C11 | 0.0586 (14) | 0.0851 (19) | 0.0725 (16) | 0.0239 (12) | 0.0193 (12) | 0.0045 (13) |
| O1—C7 | 1.229 (2) | C8—C9 | 1.382 (3) |
| N2—C6 | 1.275 (2) | C5—C1 | 1.383 (3) |
| N2—N3 | 1.367 (2) | C5—C6 | 1.460 (3) |
| N3—N2 | 1.367 (2) | C9—C10 | 1.378 (3) |
| N3—C7 | 1.368 (2) | C9—H9 | 0.9300 |
| N3—H3N | 0.93 (2) | C6—H6 | 0.99 (2) |
| N4—C7 | 1.354 (2) | C13—C12 | 1.384 (3) |
| N4—C8 | 1.415 (2) | C13—H13 | 0.9300 |
| N4—H4N | 0.91 (2) | C10—C11 | 1.376 (3) |
| N1—C3 | 1.329 (3) | C10—H10 | 0.9300 |
| N1—C2 | 1.329 (3) | C2—C1 | 1.374 (3) |
| C4—C3 | 1.379 (3) | C2—H2 | 0.9300 |
| C4—C5 | 1.386 (3) | C1—H1 | 0.9300 |
| C4—H4 | 0.9300 | C12—C11 | 1.373 (3) |
| C3—H3 | 0.9300 | C12—H12 | 0.9300 |
| C8—C13 | 1.381 (3) | C11—H11 | 0.9300 |
| C6—N2—N3 | 116.68 (16) | C10—C9—H9 | 119.7 |
| N2—N3—C7 | 121.56 (16) | C8—C9—H9 | 119.7 |
| N2—N3—H3N | 120.5 (14) | N2—C6—C5 | 119.94 (17) |
| C7—N3—H3N | 117.9 (14) | N2—C6—H6 | 120.3 (12) |
| C7—N4—C8 | 125.56 (16) | C5—C6—H6 | 119.8 (12) |
| C7—N4—H4N | 116.7 (13) | C8—C13—C12 | 119.8 (2) |
| C8—N4—H4N | 117.4 (13) | C8—C13—H13 | 120.1 |
| C3—N1—C2 | 115.80 (18) | C12—C13—H13 | 120.1 |
| O1—C7—N4 | 124.85 (17) | C11—C10—C9 | 120.6 (2) |
| O1—C7—N3 | 119.15 (17) | C11—C10—H10 | 119.7 |
| N4—C7—N3 | 115.99 (16) | C9—C10—H10 | 119.7 |
| C3—C4—C5 | 119.03 (19) | N1—C2—C1 | 124.5 (2) |
| C3—C4—H4 | 120.5 | N1—C2—H2 | 117.7 |
| N1—C3—C4 | 124.3 (2) | C1—C2—H2 | 117.7 |
| N1—C3—H3 | 117.9 | C2—C1—C5 | 119.1 (2) |
| C4—C3—H3 | 117.9 | C2—C1—H1 | 120.4 |
| C13—C8—C9 | 118.96 (18) | C5—C1—H1 | 120.4 |
| C13—C8—N4 | 123.37 (18) | C11—C12—C13 | 121.3 (2) |
| C9—C8—N4 | 117.65 (18) | C11—C12—H12 | 119.3 |
| C1—C5—C4 | 117.19 (18) | C13—C12—H12 | 119.3 |
| C1—C5—C6 | 119.74 (18) | C12—C11—C10 | 118.7 (2) |
| C4—C5—C6 | 123.05 (18) | C12—C11—H11 | 120.7 |
| C10—C9—C8 | 120.6 (2) | C10—C11—H11 | 120.7 |
| C6—N2—N3—C7 | 174.5 (2) | N3—N2—C6—C5 | 179.75 (18) |
| C8—N4—C7—O1 | −2.8 (3) | C1—C5—C6—N2 | 148.6 (2) |
| C8—N4—C7—N3 | 178.13 (19) | C4—C5—C6—N2 | −30.0 (3) |
| N2—N3—C7—O1 | 171.39 (19) | C9—C8—C13—C12 | −1.2 (3) |
| N2—N3—C7—N4 | −9.5 (3) | N4—C8—C13—C12 | −179.6 (2) |
| C2—N1—C3—C4 | 0.3 (3) | C8—C9—C10—C11 | 0.7 (4) |
| C5—C4—C3—N1 | 0.8 (3) | C3—N1—C2—C1 | −0.1 (4) |
| C7—N4—C8—C13 | −21.7 (3) | N1—C2—C1—C5 | −1.3 (4) |
| C7—N4—C8—C9 | 159.8 (2) | C4—C5—C1—C2 | 2.3 (3) |
| C3—C4—C5—C1 | −2.1 (3) | C6—C5—C1—C2 | −176.3 (2) |
| C3—C4—C5—C6 | 176.49 (19) | C8—C13—C12—C11 | 0.8 (4) |
| C13—C8—C9—C10 | 0.4 (3) | C13—C12—C11—C10 | 0.3 (4) |
| N4—C8—C9—C10 | 179.0 (2) | C9—C10—C11—C12 | −1.1 (4) |
| Cg2 is the centroid of the C8–C13 ring. |
| H··· | ||||
| N3—H3N···O1i | 0.93 (2) | 1.91 (2) | 2.833 (2) | 172 (2) |
| N4—H4N···N1ii | 0.91 (2) | 2.24 (2) | 3.122 (3) | 161.8 (19) |
| N4—H4N···N2 | 0.91 (2) | 2.29 (2) | 2.685 (2) | 105.4 (16) |
| C13—H13···O1 | 0.93 | 2.31 | 2.854 (2) | 117 |
| C1—H1···Cg2iii | 0.93 | 2.88 | 3.644 (2) | 140 |
Hydrogen-bond geometry (Å, °)
Cg2 is the centroid of the C8–C13 ring.
| H⋯ | ||||
|---|---|---|---|---|
| N3—H3 | 0.93 (2) | 1.91 (2) | 2.833 (2) | 172 (2) |
| N4—H4 | 0.91 (2) | 2.24 (2) | 3.122 (3) | 161.8 (19) |
| N4—H4 | 0.91 (2) | 2.29 (2) | 2.685 (2) | 105.4 (16) |
| C13—H13⋯O1 | 0.93 | 2.31 | 2.854 (2) | 117 |
| C1—H1⋯ | 0.93 | 2.88 | 3.644 (2) | 140 |
Symmetry codes: (i) ; (ii) ; (iii) .