| Literature DB >> 21577604 |
Jerry P Jasinski, Ray J Butcher, Q N M Hakim Al-Arique, H S Yathirajan, B Narayana.
Abstract
In the cation of the title salt, C(11)H(12)ClN(2)O(+)·C(6)H(2)N(3)O(7) (-), the chloro-ethyl side chain is in a syn conformation, nearly orthogonal to the pyrimidine ring, with a dihedral angle of 78.9 (6)° between the plane of the chloro-ethyl chain and the pyrimidine ring. The dihedral angle between the fused rings is 4.3 (3)°. In the picrate anion, the benzene mean plane makes dihedral angles of 26.7 (1), 33.6 (2) and 5.3 (6)° with the two o-NO(2) groups and the p-NO(2) group, respectively. Extensive hydrogen-bond inter-actions occur between the cation-anion pair which help to establish the crystal packing. A three-center O⋯(H,H)-(N,C) acceptor hydrogen bond is observed between the phenolate O atom of the picrate anion and the amine and methyl groups of the cation. An N-H⋯(O,O) bifurcated hydrogen bond is observed between the amine group and two O atoms from the phenolate and o-NO(2) groups.Entities:
Year: 2009 PMID: 21577604 PMCID: PMC2970075 DOI: 10.1107/S1600536809032693
Source DB: PubMed Journal: Acta Crystallogr Sect E Struct Rep Online ISSN: 1600-5368
| C11H12ClN2O+·C6H2N3O7− | |
| Monoclinic, | Cu |
| Hall symbol: -P 2yn | Cell parameters from 4324 reflections |
| θ = 4.1–74.1° | |
| µ = 2.40 mm−1 | |
| β = 97.642 (9)° | Chunk, pale yellow |
| 0.44 × 0.37 × 0.23 mm | |
| Oxford Diffraction Xcalibur diffractometer with a Ruby (Gemini Cu) detector | 3616 independent reflections |
| Radiation source: Enhance (Cu) X-ray Source | 3198 reflections with |
| graphite | |
| Detector resolution: 10.5081 pixels mm-1 | θmax = 74.0°, θmin = 4.1° |
| ω scans | |
| Absorption correction: multi-scan ( | |
| 6948 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 | |
| H-atom parameters constrained | |
| 3616 reflections | (Δ/σ)max < 0.001 |
| 281 parameters | Δρmax = 0.30 e Å−3 |
| 0 restraints | Δρmin = −0.29 e Å−3 |
| Geometry. All e.s.d.'s (except the e.s.d. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell e.s.d.'s are taken into account individually in the estimation of e.s.d.'s in distances, angles and torsion angles; correlations between e.s.d.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell e.s.d.'s is used for estimating e.s.d.'s involving l.s. planes. |
| Refinement. Refinement of |
| Cl1A | 0.86173 (5) | 0.88220 (3) | 0.687448 (19) | 0.02115 (12) | |
| O1A | 0.51748 (16) | 0.63234 (9) | 0.76768 (5) | 0.0210 (2) | |
| N1A | 0.37082 (17) | 0.50513 (9) | 0.69885 (6) | 0.0150 (3) | |
| C1A | 0.5193 (2) | 0.58121 (11) | 0.71692 (8) | 0.0162 (3) | |
| C2A | 0.6526 (2) | 0.58732 (11) | 0.66975 (7) | 0.0153 (3) | |
| C3A | 0.6432 (2) | 0.52080 (11) | 0.61613 (7) | 0.0154 (3) | |
| N4A | 0.50951 (17) | 0.44532 (10) | 0.60742 (6) | 0.0162 (3) | |
| H4AA | 0.5124 | 0.4000 | 0.5744 | 0.019* | |
| C5A | 0.3734 (2) | 0.43685 (11) | 0.64690 (7) | 0.0157 (3) | |
| C6A | 0.2346 (2) | 0.35986 (12) | 0.63478 (8) | 0.0196 (3) | |
| H6AA | 0.2378 | 0.3105 | 0.5994 | 0.024* | |
| C7A | 0.0949 (2) | 0.35698 (13) | 0.67466 (9) | 0.0226 (3) | |
| H7AA | 0.0018 | 0.3046 | 0.6677 | 0.027* | |
| C8A | 0.0903 (2) | 0.43233 (13) | 0.72609 (8) | 0.0227 (3) | |
| H8AA | −0.0095 | 0.4328 | 0.7524 | 0.027* | |
| C9A | 0.2275 (2) | 0.50377 (12) | 0.73803 (8) | 0.0190 (3) | |
| H9AA | 0.2254 | 0.5532 | 0.7734 | 0.023* | |
| C10A | 0.7963 (2) | 0.67205 (12) | 0.68363 (8) | 0.0171 (3) | |
| H10A | 0.9037 | 0.6568 | 0.6595 | 0.021* | |
| H10B | 0.8409 | 0.6754 | 0.7327 | 0.021* | |
| C11A | 0.7098 (2) | 0.77552 (12) | 0.65971 (8) | 0.0187 (3) | |
| H11A | 0.5904 | 0.7844 | 0.6778 | 0.022* | |
| H11B | 0.6843 | 0.7757 | 0.6097 | 0.022* | |
| C12A | 0.7717 (2) | 0.52487 (13) | 0.56313 (8) | 0.0202 (3) | |
| H12A | 0.9003 | 0.5188 | 0.5848 | 0.030* | |
| H12B | 0.7554 | 0.5914 | 0.5388 | 0.030* | |
| H12C | 0.7433 | 0.4671 | 0.5312 | 0.030* | |
| O1B | 0.57412 (15) | 0.30604 (8) | 0.51298 (5) | 0.0185 (2) | |
| O21B | 0.81068 (17) | 0.36265 (9) | 0.42333 (6) | 0.0246 (3) | |
| O22B | 0.75216 (16) | 0.25511 (9) | 0.33919 (6) | 0.0223 (3) | |
| O41B | 0.88575 (16) | −0.10609 (9) | 0.40701 (6) | 0.0233 (3) | |
| O42B | 0.78903 (17) | −0.16264 (9) | 0.49860 (6) | 0.0248 (3) | |
| O61B | 0.52961 (16) | 0.07476 (10) | 0.64703 (6) | 0.0250 (3) | |
| O62B | 0.61759 (18) | 0.23621 (9) | 0.64474 (6) | 0.0257 (3) | |
| N2B | 0.76693 (17) | 0.27587 (10) | 0.40009 (7) | 0.0174 (3) | |
| N4B | 0.81817 (17) | −0.09140 (10) | 0.45962 (7) | 0.0175 (3) | |
| N6B | 0.59534 (18) | 0.14919 (11) | 0.61918 (6) | 0.0180 (3) | |
| C1B | 0.6503 (2) | 0.21995 (11) | 0.50651 (7) | 0.0145 (3) | |
| C2B | 0.7355 (2) | 0.19261 (12) | 0.44702 (7) | 0.0153 (3) | |
| C3B | 0.7866 (2) | 0.09381 (12) | 0.43082 (7) | 0.0158 (3) | |
| H3BA | 0.8335 | 0.0804 | 0.3894 | 0.019* | |
| C4B | 0.76828 (19) | 0.01382 (12) | 0.47634 (7) | 0.0156 (3) | |
| C5B | 0.70412 (19) | 0.03312 (12) | 0.53788 (7) | 0.0157 (3) | |
| H5BA | 0.6955 | −0.0220 | 0.5691 | 0.019* | |
| C6B | 0.6534 (2) | 0.13254 (12) | 0.55290 (7) | 0.0151 (3) |
| Cl1A | 0.0225 (2) | 0.0160 (2) | 0.0248 (2) | −0.00529 (13) | 0.00290 (15) | −0.00297 (14) |
| O1A | 0.0287 (6) | 0.0192 (6) | 0.0158 (5) | −0.0004 (4) | 0.0054 (4) | −0.0034 (4) |
| N1A | 0.0175 (6) | 0.0129 (6) | 0.0149 (6) | 0.0017 (5) | 0.0037 (5) | 0.0018 (5) |
| C1A | 0.0202 (7) | 0.0121 (7) | 0.0157 (7) | 0.0020 (6) | 0.0006 (6) | 0.0025 (6) |
| C2A | 0.0158 (7) | 0.0143 (7) | 0.0154 (7) | 0.0002 (6) | 0.0009 (5) | 0.0019 (5) |
| C3A | 0.0154 (7) | 0.0140 (7) | 0.0167 (7) | 0.0020 (5) | 0.0018 (5) | 0.0017 (6) |
| N4A | 0.0189 (6) | 0.0144 (6) | 0.0159 (6) | 0.0004 (5) | 0.0044 (5) | −0.0028 (5) |
| C5A | 0.0187 (7) | 0.0128 (7) | 0.0156 (7) | 0.0032 (6) | 0.0023 (6) | 0.0027 (5) |
| C6A | 0.0218 (8) | 0.0136 (7) | 0.0232 (8) | 0.0012 (6) | 0.0023 (6) | 0.0006 (6) |
| C7A | 0.0205 (8) | 0.0169 (7) | 0.0303 (9) | −0.0027 (6) | 0.0035 (7) | 0.0057 (6) |
| C8A | 0.0225 (8) | 0.0234 (8) | 0.0237 (8) | 0.0017 (6) | 0.0089 (6) | 0.0076 (7) |
| C9A | 0.0226 (7) | 0.0190 (7) | 0.0165 (7) | 0.0039 (6) | 0.0069 (6) | 0.0048 (6) |
| C10A | 0.0176 (7) | 0.0171 (7) | 0.0163 (7) | −0.0007 (6) | 0.0010 (6) | −0.0011 (6) |
| C11A | 0.0180 (7) | 0.0150 (7) | 0.0221 (8) | −0.0044 (6) | −0.0002 (6) | −0.0017 (6) |
| C12A | 0.0213 (7) | 0.0221 (8) | 0.0183 (7) | −0.0019 (6) | 0.0063 (6) | −0.0027 (6) |
| O1B | 0.0219 (5) | 0.0163 (5) | 0.0175 (5) | 0.0027 (4) | 0.0037 (4) | −0.0018 (4) |
| O21B | 0.0309 (6) | 0.0177 (6) | 0.0261 (6) | −0.0055 (5) | 0.0071 (5) | −0.0003 (5) |
| O22B | 0.0257 (6) | 0.0268 (6) | 0.0149 (5) | 0.0026 (5) | 0.0045 (4) | 0.0025 (5) |
| O41B | 0.0264 (6) | 0.0222 (6) | 0.0226 (6) | 0.0026 (5) | 0.0085 (5) | −0.0070 (5) |
| O42B | 0.0296 (6) | 0.0152 (5) | 0.0313 (7) | 0.0001 (5) | 0.0103 (5) | 0.0018 (5) |
| O61B | 0.0266 (6) | 0.0304 (7) | 0.0199 (6) | −0.0034 (5) | 0.0096 (5) | 0.0024 (5) |
| O62B | 0.0412 (7) | 0.0208 (6) | 0.0149 (5) | 0.0088 (5) | 0.0029 (5) | −0.0030 (4) |
| N2B | 0.0148 (6) | 0.0188 (7) | 0.0190 (6) | 0.0009 (5) | 0.0039 (5) | 0.0017 (5) |
| N4B | 0.0141 (6) | 0.0172 (6) | 0.0210 (7) | −0.0015 (5) | 0.0018 (5) | −0.0039 (5) |
| N6B | 0.0177 (6) | 0.0220 (7) | 0.0143 (6) | 0.0041 (5) | 0.0027 (5) | 0.0012 (5) |
| C1B | 0.0129 (6) | 0.0157 (7) | 0.0148 (7) | −0.0008 (5) | 0.0010 (5) | −0.0021 (6) |
| C2B | 0.0141 (6) | 0.0178 (7) | 0.0140 (7) | −0.0020 (5) | 0.0016 (5) | 0.0011 (6) |
| C3B | 0.0131 (7) | 0.0198 (7) | 0.0145 (7) | −0.0007 (6) | 0.0025 (5) | −0.0026 (6) |
| C4B | 0.0138 (7) | 0.0155 (7) | 0.0175 (7) | −0.0005 (5) | 0.0019 (5) | −0.0036 (6) |
| C5B | 0.0125 (7) | 0.0166 (7) | 0.0178 (7) | −0.0014 (5) | 0.0011 (5) | 0.0007 (6) |
| C6B | 0.0136 (7) | 0.0186 (7) | 0.0133 (7) | −0.0003 (5) | 0.0028 (5) | −0.0011 (6) |
| Cl1A—C11A | 1.7979 (15) | C11A—H11A | 0.9900 |
| O1A—C1A | 1.2073 (19) | C11A—H11B | 0.9900 |
| N1A—C5A | 1.3582 (19) | C12A—H12A | 0.9800 |
| N1A—C9A | 1.3835 (19) | C12A—H12B | 0.9800 |
| N1A—C1A | 1.4636 (19) | C12A—H12C | 0.9800 |
| C1A—C2A | 1.440 (2) | O1B—C1B | 1.2489 (18) |
| C2A—C3A | 1.362 (2) | O21B—N2B | 1.2303 (18) |
| C2A—C10A | 1.507 (2) | O22B—N2B | 1.2337 (17) |
| C3A—N4A | 1.3659 (19) | O41B—N4B | 1.2307 (17) |
| C3A—C12A | 1.502 (2) | O42B—N4B | 1.2355 (18) |
| N4A—C5A | 1.3485 (19) | O61B—N6B | 1.2317 (18) |
| N4A—H4AA | 0.8800 | O62B—N6B | 1.2279 (18) |
| C5A—C6A | 1.409 (2) | N2B—C2B | 1.4572 (19) |
| C6A—C7A | 1.372 (2) | N4B—C4B | 1.4469 (19) |
| C6A—H6AA | 0.9500 | N6B—C6B | 1.4559 (19) |
| C7A—C8A | 1.412 (2) | C1B—C6B | 1.451 (2) |
| C7A—H7AA | 0.9500 | C1B—C2B | 1.452 (2) |
| C8A—C9A | 1.352 (2) | C2B—C3B | 1.370 (2) |
| C8A—H8AA | 0.9500 | C3B—C4B | 1.387 (2) |
| C9A—H9AA | 0.9500 | C3B—H3BA | 0.9500 |
| C10A—C11A | 1.517 (2) | C4B—C5B | 1.392 (2) |
| C10A—H10A | 0.9900 | C5B—C6B | 1.371 (2) |
| C10A—H10B | 0.9900 | C5B—H5BA | 0.9500 |
| C5A—N1A—C9A | 120.69 (13) | Cl1A—C11A—H11A | 109.5 |
| C5A—N1A—C1A | 122.17 (12) | C10A—C11A—H11B | 109.5 |
| C9A—N1A—C1A | 117.12 (13) | Cl1A—C11A—H11B | 109.5 |
| O1A—C1A—C2A | 126.96 (14) | H11A—C11A—H11B | 108.1 |
| O1A—C1A—N1A | 118.57 (14) | C3A—C12A—H12A | 109.5 |
| C2A—C1A—N1A | 114.47 (13) | C3A—C12A—H12B | 109.5 |
| C3A—C2A—C1A | 120.70 (14) | H12A—C12A—H12B | 109.5 |
| C3A—C2A—C10A | 123.83 (14) | C3A—C12A—H12C | 109.5 |
| C1A—C2A—C10A | 115.46 (13) | H12A—C12A—H12C | 109.5 |
| C2A—C3A—N4A | 120.25 (13) | H12B—C12A—H12C | 109.5 |
| C2A—C3A—C12A | 124.01 (14) | O21B—N2B—O22B | 123.36 (13) |
| N4A—C3A—C12A | 115.73 (13) | O21B—N2B—C2B | 118.35 (13) |
| C5A—N4A—C3A | 123.23 (13) | O22B—N2B—C2B | 118.27 (13) |
| C5A—N4A—H4AA | 118.4 | O41B—N4B—O42B | 122.99 (13) |
| C3A—N4A—H4AA | 118.4 | O41B—N4B—C4B | 118.67 (13) |
| N4A—C5A—N1A | 118.62 (13) | O42B—N4B—C4B | 118.33 (13) |
| N4A—C5A—C6A | 121.39 (14) | O62B—N6B—O61B | 123.63 (13) |
| N1A—C5A—C6A | 119.99 (14) | O62B—N6B—C6B | 118.15 (13) |
| C7A—C6A—C5A | 119.23 (15) | O61B—N6B—C6B | 118.20 (13) |
| C7A—C6A—H6AA | 120.4 | O1B—C1B—C6B | 125.86 (14) |
| C5A—C6A—H6AA | 120.4 | O1B—C1B—C2B | 122.74 (13) |
| C6A—C7A—C8A | 119.56 (15) | C6B—C1B—C2B | 111.23 (13) |
| C6A—C7A—H7AA | 120.2 | C3B—C2B—C1B | 125.03 (13) |
| C8A—C7A—H7AA | 120.2 | C3B—C2B—N2B | 117.04 (13) |
| C9A—C8A—C7A | 120.20 (15) | C1B—C2B—N2B | 117.92 (13) |
| C9A—C8A—H8AA | 119.9 | C2B—C3B—C4B | 118.42 (14) |
| C7A—C8A—H8AA | 119.9 | C2B—C3B—H3BA | 120.8 |
| C8A—C9A—N1A | 120.20 (15) | C4B—C3B—H3BA | 120.8 |
| C8A—C9A—H9AA | 119.9 | C3B—C4B—C5B | 121.21 (14) |
| N1A—C9A—H9AA | 119.9 | C3B—C4B—N4B | 119.28 (13) |
| C2A—C10A—C11A | 108.90 (12) | C5B—C4B—N4B | 119.51 (13) |
| C2A—C10A—H10A | 109.9 | C6B—C5B—C4B | 119.29 (14) |
| C11A—C10A—H10A | 109.9 | C6B—C5B—H5BA | 120.4 |
| C2A—C10A—H10B | 109.9 | C4B—C5B—H5BA | 120.4 |
| C11A—C10A—H10B | 109.9 | C5B—C6B—C1B | 124.09 (14) |
| H10A—C10A—H10B | 108.3 | C5B—C6B—N6B | 116.97 (13) |
| C10A—C11A—Cl1A | 110.85 (11) | C1B—C6B—N6B | 118.92 (13) |
| C10A—C11A—H11A | 109.5 | ||
| C5A—N1A—C1A—O1A | −172.72 (13) | C2A—C10A—C11A—Cl1A | 170.43 (10) |
| C9A—N1A—C1A—O1A | 6.0 (2) | O1B—C1B—C2B—C3B | −165.97 (15) |
| C5A—N1A—C1A—C2A | 8.26 (19) | C6B—C1B—C2B—C3B | 9.5 (2) |
| C9A—N1A—C1A—C2A | −173.04 (12) | O1B—C1B—C2B—N2B | 13.0 (2) |
| O1A—C1A—C2A—C3A | 176.59 (15) | C6B—C1B—C2B—N2B | −171.52 (12) |
| N1A—C1A—C2A—C3A | −4.5 (2) | O21B—N2B—C2B—C3B | −145.18 (14) |
| O1A—C1A—C2A—C10A | −4.5 (2) | O22B—N2B—C2B—C3B | 33.30 (19) |
| N1A—C1A—C2A—C10A | 174.42 (12) | O21B—N2B—C2B—C1B | 35.76 (19) |
| C1A—C2A—C3A—N4A | −1.8 (2) | O22B—N2B—C2B—C1B | −145.77 (14) |
| C10A—C2A—C3A—N4A | 179.40 (13) | C1B—C2B—C3B—C4B | −4.6 (2) |
| C1A—C2A—C3A—C12A | 177.36 (14) | N2B—C2B—C3B—C4B | 176.39 (13) |
| C10A—C2A—C3A—C12A | −1.5 (2) | C2B—C3B—C4B—C5B | −1.6 (2) |
| C2A—C3A—N4A—C5A | 5.2 (2) | C2B—C3B—C4B—N4B | 178.83 (13) |
| C12A—C3A—N4A—C5A | −174.00 (13) | O41B—N4B—C4B—C3B | 4.1 (2) |
| C3A—N4A—C5A—N1A | −1.5 (2) | O42B—N4B—C4B—C3B | −175.13 (13) |
| C3A—N4A—C5A—C6A | 177.89 (14) | O41B—N4B—C4B—C5B | −175.43 (13) |
| C9A—N1A—C5A—N4A | 175.85 (13) | O42B—N4B—C4B—C5B | 5.3 (2) |
| C1A—N1A—C5A—N4A | −5.5 (2) | C3B—C4B—C5B—C6B | 1.8 (2) |
| C9A—N1A—C5A—C6A | −3.5 (2) | N4B—C4B—C5B—C6B | −178.67 (13) |
| C1A—N1A—C5A—C6A | 175.12 (13) | C4B—C5B—C6B—C1B | 4.3 (2) |
| N4A—C5A—C6A—C7A | −177.42 (14) | C4B—C5B—C6B—N6B | −177.30 (13) |
| N1A—C5A—C6A—C7A | 2.0 (2) | O1B—C1B—C6B—C5B | 166.06 (15) |
| C5A—C6A—C7A—C8A | 1.3 (2) | C2B—C1B—C6B—C5B | −9.2 (2) |
| C6A—C7A—C8A—C9A | −3.1 (2) | O1B—C1B—C6B—N6B | −12.4 (2) |
| C7A—C8A—C9A—N1A | 1.6 (2) | C2B—C1B—C6B—N6B | 172.34 (12) |
| C5A—N1A—C9A—C8A | 1.8 (2) | O62B—N6B—C6B—C5B | 152.45 (14) |
| C1A—N1A—C9A—C8A | −176.96 (13) | O61B—N6B—C6B—C5B | −26.3 (2) |
| C3A—C2A—C10A—C11A | 100.58 (17) | O62B—N6B—C6B—C1B | −29.02 (19) |
| C1A—C2A—C10A—C11A | −78.29 (16) | O61B—N6B—C6B—C1B | 152.23 (13) |
| H··· | ||||
| N4A—H4AA···O1B | 0.88 | 1.82 | 2.6811 (16) | 167 |
| N4A—H4AA···O62B | 0.88 | 2.58 | 2.8632 (17) | 100 |
| C5B—H5BA···Cl1Ai | 0.95 | 2.79 | 3.6112 (16) | 146 |
| C7A—H7AA···O1Aii | 0.95 | 2.57 | 3.2446 (19) | 128 |
| C12A—H12C···O1B | 0.98 | 2.41 | 3.2477 (19) | 144 |
| C9A—H9AA···O61Biii | 0.95 | 2.61 | 3.2734 (19) | 127 |
| C12A—H12A···O21Biv | 0.98 | 2.62 | 3.340 (2) | 131 |
| C10A—H10B···O62Bv | 0.99 | 2.54 | 3.494 (2) | 161 |
| C11A—H11A···O22Bvi | 0.99 | 2.52 | 3.385 (2) | 146 |
| C11A—H11B···O42Bvii | 0.99 | 2.56 | 3.431 (2) | 147 |
Hydrogen-bond geometry (Å, °)
| H⋯ | ||||
|---|---|---|---|---|
| N4 | 0.88 | 1.82 | 2.6811 (16) | 167 |
| N4 | 0.88 | 2.58 | 2.8632 (17) | 100 |
| C5 | 0.95 | 2.79 | 3.6112 (16) | 146 |
| C7 | 0.95 | 2.57 | 3.2446 (19) | 128 |
| C12 | 0.98 | 2.41 | 3.2477 (19) | 144 |
| C9 | 0.95 | 2.61 | 3.2734 (19) | 127 |
| C12 | 0.98 | 2.62 | 3.340 (2) | 131 |
| C10 | 0.99 | 2.54 | 3.494 (2) | 161 |
| C11 | 0.99 | 2.52 | 3.385 (2) | 146 |
| C11 | 0.99 | 2.56 | 3.431 (2) | 147 |
Symmetry codes: (i) ; (ii) ; (iii) ; (iv) ; (v) ; (vi) ; (vii) .