| Literature DB >> 26279876 |
M Suresh1, M Syed Ali Padusha1, J Josephine Novina2, G Vasuki3, Vijayan Viswanathan4, Devadasan Velmurugan4.
Abstract
In the title compound, C17H21ClN2O6, the di-hydro-pyrimidine ring adopts a flattened envelope conformation, with the sp (3)-hybridized C atom forming the flap. The dihedral angle between the least-squares planes of the benzene and di-hydro-pyrimidine rings is 88.09 (6)°. An intra-molecular C-H⋯O hydrogen bond generates an S(6) ring. In the crystal, mol-ecules are linked via pairs of N-H⋯O hydrogen bonds, forming inversion dimers with an R 2 (2)(8) ring motif, and the dimers are linked via further pairs of N-H⋯O hydrogen bonds, forming R 2 (2)(14) rings and chains of mol-ecules along [111]. Pairs of inversion-related chains are linked via weak C-H⋯π inter-actions.Entities:
Keywords: C—H⋯π interactions; conformation; crystal structure; dihydropyrimidine; ring motif
Year: 2015 PMID: 26279876 PMCID: PMC4518964 DOI: 10.1107/S2056989015011688
Source DB: PubMed Journal: Acta Crystallogr E Crystallogr Commun
Figure 1The molecular structure of the title compound, with displacement ellipsoids drawn at the 50% probability level. The dashed line indicates the intramolecular C10—H10A⋯O1 hydrogen bond.
Hydrogen-bond geometry (, )
Cg is the centroid of the N1/C11C13/N2/C14 pyrimidine ring.
|
|
| H |
|
|
|---|---|---|---|---|
| N1H1 | 0.86 | 1.95 | 2.812(2) | 178 |
| N2H2 | 0.86 | 2.37 | 3.160(2) | 153 |
| C17H17 | 0.96 | 2.83 | 3.676(4) | 147 |
| C10H10 | 0.97 | 2.14 | 2.864(3) | 131 |
Symmetry codes: (i) ; (ii) ; (iii) .
Figure 2Partial crystal packing diagram for the title compound, showing the (8) and (14) ring motifs. Hydrogen bonds are shown as dashed lines.
Figure 3Part of the crystal packing of the title compound, showing C—H⋯π interactions and N—H⋯O hydrogen bonds as dashed lines.
Experimental details
| Crystal data | |
| Chemical formula | C17H21ClN2O6 |
|
| 384.81 |
| Crystal system, space group | Triclinic, |
| Temperature (K) | 293 |
|
| 9.479(5), 10.080(5), 10.320(5) |
| , , () | 108.552(5), 102.886(5), 94.406(5) |
|
| 899.5(8) |
|
| 2 |
| Radiation type | Mo |
| (mm1) | 0.25 |
| Crystal size (mm) | 0.20 0.15 0.10 |
| Data collection | |
| Diffractometer | Bruker Kappa APEXII CCD |
| Absorption correction | Multi-scan ( |
|
| 0.952, 0.976 |
| No. of measured, independent and observed [ | 12878, 3737, 3025 |
|
| 0.025 |
| (sin /)max (1) | 0.631 |
| Refinement | |
|
| 0.041, 0.121, 1.04 |
| No. of reflections | 3737 |
| No. of parameters | 239 |
| H-atom treatment | H-atom parameters constrained |
| max, min (e 3) | 0.25, 0.28 |
Computer programs: APEX2, SAINT and XPREP (Bruker, 2008 ▸), SIR92 (Altomare et al., 1993 ▸), SHELXL97 (Sheldrick, 2008 ▸), ORTEP-3 for Windows (Farrugia, 2012 ▸) and PLATON (Spek, 2009 ▸).
| C17H21ClN2O6 | |
| Triclinic, | |
| Hall symbol: -P 1 | Mo |
| Cell parameters from 3737 reflections | |
| θ = 1.0–26.6° | |
| µ = 0.25 mm−1 | |
| α = 108.552 (5)° | |
| β = 102.886 (5)° | Block, colourless |
| γ = 94.406 (5)° | 0.20 × 0.15 × 0.10 mm |
| Bruker Kappa APEXII CCD diffractometer | 3737 independent reflections |
| Radiation source: fine-focus sealed tube | 3025 reflections with |
| Graphite monochromator | |
| ω and φ scan | θmax = 26.6°, θmin = 2.2° |
| Absorption correction: multi-scan ( | |
| 12878 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 | |
| 3737 reflections | (Δ/σ)max < 0.001 |
| 239 parameters | Δρmax = 0.25 e Å−3 |
| 0 restraints | Δρmin = −0.28 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 |
| C7 | 0.3380 (3) | −0.2172 (2) | −0.3248 (3) | 0.0695 (6) | |
| H7A | 0.3999 | −0.1501 | −0.3444 | 0.104* | |
| H7B | 0.3213 | −0.3077 | −0.3989 | 0.104* | |
| H7C | 0.3848 | −0.2260 | −0.2360 | 0.104* | |
| C4 | 0.2052 (2) | −0.03983 (17) | −0.22112 (17) | 0.0417 (4) | |
| C5 | 0.33170 (19) | 0.04788 (18) | −0.12747 (18) | 0.0428 (4) | |
| H5 | 0.4230 | 0.0206 | −0.1293 | 0.051* | |
| C6 | 0.32077 (18) | 0.17612 (18) | −0.03140 (17) | 0.0404 (4) | |
| H6 | 0.4058 | 0.2338 | 0.0317 | 0.049* | |
| C1 | 0.18792 (17) | 0.22104 (16) | −0.02627 (16) | 0.0353 (3) | |
| C2 | 0.06034 (17) | 0.13322 (17) | −0.12190 (17) | 0.0375 (4) | |
| C3 | 0.06932 (19) | 0.00217 (17) | −0.21729 (17) | 0.0409 (4) | |
| C8 | −0.1441 (3) | −0.0596 (3) | −0.4122 (2) | 0.0685 (6) | |
| H8A | −0.1575 | 0.0377 | −0.3781 | 0.103* | |
| H8B | −0.2377 | −0.1197 | −0.4467 | 0.103* | |
| H8C | −0.0969 | −0.0740 | −0.4877 | 0.103* | |
| C9 | −0.1707 (3) | 0.1099 (3) | −0.0726 (3) | 0.0690 (6) | |
| H9A | −0.1769 | 0.0092 | −0.1149 | 0.104* | |
| H9B | −0.2658 | 0.1358 | −0.0970 | 0.104* | |
| H9C | −0.1365 | 0.1373 | 0.0285 | 0.104* | |
| C13 | 0.17802 (17) | 0.35901 (16) | 0.08517 (16) | 0.0360 (3) | |
| H13 | 0.0787 | 0.3807 | 0.0601 | 0.043* | |
| C12 | 0.28624 (17) | 0.48334 (16) | 0.09400 (16) | 0.0357 (3) | |
| C11 | 0.39561 (18) | 0.54845 (16) | 0.21121 (17) | 0.0376 (4) | |
| C14 | 0.31732 (19) | 0.40206 (18) | 0.33668 (17) | 0.0417 (4) | |
| C10 | 0.5076 (2) | 0.67371 (18) | 0.23650 (19) | 0.0451 (4) | |
| H10A | 0.5094 | 0.6851 | 0.1470 | 0.054* | |
| H10B | 0.6041 | 0.6582 | 0.2793 | 0.054* | |
| C15 | 0.26590 (19) | 0.52688 (17) | −0.03168 (17) | 0.0391 (4) | |
| C16 | 0.1095 (2) | 0.4838 (2) | −0.2602 (2) | 0.0548 (5) | |
| H16A | 0.1940 | 0.4739 | −0.2989 | 0.066* | |
| H16B | 0.0869 | 0.5787 | −0.2469 | 0.066* | |
| C17 | −0.0182 (3) | 0.3764 (3) | −0.3576 (2) | 0.0816 (8) | |
| H17A | 0.0067 | 0.2832 | −0.3725 | 0.122* | |
| H17B | −0.0438 | 0.3916 | −0.4466 | 0.122* | |
| H17C | −0.1001 | 0.3852 | −0.3166 | 0.122* | |
| N2 | 0.20306 (15) | 0.34077 (15) | 0.22426 (14) | 0.0414 (3) | |
| H2N | 0.1367 | 0.2844 | 0.2341 | 0.050* | |
| N1 | 0.41333 (16) | 0.50454 (16) | 0.32654 (15) | 0.0478 (4) | |
| H1N | 0.4894 | 0.5439 | 0.3964 | 0.057* | |
| O5 | 0.20239 (16) | −0.16966 (14) | −0.31766 (15) | 0.0586 (4) | |
| O4 | −0.05528 (14) | −0.09329 (13) | −0.29991 (14) | 0.0536 (4) | |
| O3 | −0.07186 (13) | 0.17960 (13) | −0.12314 (14) | 0.0471 (3) | |
| O1 | 0.34931 (16) | 0.60863 (16) | −0.05290 (15) | 0.0615 (4) | |
| O2 | 0.13972 (14) | 0.45913 (14) | −0.12663 (13) | 0.0495 (3) | |
| O6 | 0.33671 (15) | 0.37184 (15) | 0.44510 (13) | 0.0595 (4) | |
| Cl | 0.46401 (7) | 0.83004 (5) | 0.35072 (6) | 0.06618 (19) |
| C7 | 0.0724 (15) | 0.0561 (13) | 0.0664 (14) | 0.0167 (11) | 0.0202 (11) | −0.0003 (10) |
| C4 | 0.0495 (10) | 0.0351 (8) | 0.0351 (8) | 0.0004 (7) | 0.0089 (7) | 0.0082 (7) |
| C5 | 0.0384 (9) | 0.0438 (9) | 0.0440 (9) | 0.0025 (7) | 0.0120 (7) | 0.0123 (7) |
| C6 | 0.0355 (8) | 0.0396 (8) | 0.0382 (8) | −0.0058 (7) | 0.0033 (6) | 0.0097 (7) |
| C1 | 0.0371 (8) | 0.0317 (7) | 0.0324 (7) | −0.0034 (6) | 0.0034 (6) | 0.0106 (6) |
| C2 | 0.0355 (8) | 0.0346 (8) | 0.0371 (8) | −0.0010 (6) | 0.0016 (6) | 0.0119 (6) |
| C3 | 0.0411 (9) | 0.0340 (8) | 0.0369 (8) | −0.0066 (7) | −0.0003 (7) | 0.0082 (7) |
| C8 | 0.0629 (13) | 0.0710 (14) | 0.0475 (11) | −0.0165 (11) | −0.0123 (9) | 0.0127 (10) |
| C9 | 0.0669 (14) | 0.0783 (15) | 0.0892 (17) | 0.0250 (12) | 0.0395 (13) | 0.0495 (14) |
| C13 | 0.0343 (8) | 0.0352 (8) | 0.0316 (7) | −0.0030 (6) | 0.0020 (6) | 0.0087 (6) |
| C12 | 0.0380 (8) | 0.0294 (7) | 0.0348 (8) | 0.0013 (6) | 0.0059 (6) | 0.0078 (6) |
| C11 | 0.0393 (9) | 0.0320 (8) | 0.0371 (8) | −0.0010 (6) | 0.0078 (7) | 0.0089 (6) |
| C14 | 0.0439 (9) | 0.0385 (8) | 0.0351 (8) | −0.0059 (7) | 0.0025 (7) | 0.0107 (7) |
| C10 | 0.0469 (10) | 0.0373 (9) | 0.0426 (9) | −0.0075 (7) | 0.0076 (7) | 0.0082 (7) |
| C15 | 0.0424 (9) | 0.0337 (8) | 0.0384 (8) | 0.0052 (7) | 0.0088 (7) | 0.0100 (7) |
| C16 | 0.0629 (12) | 0.0611 (12) | 0.0402 (9) | 0.0124 (10) | 0.0058 (8) | 0.0220 (9) |
| C17 | 0.0997 (19) | 0.0735 (16) | 0.0466 (12) | 0.0001 (14) | −0.0117 (12) | 0.0114 (11) |
| N2 | 0.0422 (8) | 0.0407 (7) | 0.0328 (7) | −0.0115 (6) | 0.0035 (6) | 0.0096 (6) |
| N1 | 0.0463 (8) | 0.0482 (8) | 0.0369 (7) | −0.0168 (7) | −0.0066 (6) | 0.0160 (6) |
| O5 | 0.0615 (9) | 0.0436 (7) | 0.0531 (8) | 0.0061 (6) | 0.0102 (6) | −0.0030 (6) |
| O4 | 0.0483 (7) | 0.0383 (6) | 0.0535 (7) | −0.0110 (5) | −0.0075 (6) | 0.0066 (6) |
| O3 | 0.0359 (6) | 0.0398 (6) | 0.0581 (8) | −0.0001 (5) | 0.0015 (5) | 0.0154 (6) |
| O1 | 0.0604 (9) | 0.0675 (9) | 0.0557 (8) | −0.0128 (7) | 0.0036 (6) | 0.0334 (7) |
| O2 | 0.0519 (7) | 0.0511 (7) | 0.0386 (6) | −0.0040 (6) | −0.0016 (5) | 0.0180 (5) |
| O6 | 0.0628 (9) | 0.0630 (9) | 0.0412 (7) | −0.0235 (7) | −0.0084 (6) | 0.0250 (6) |
| Cl | 0.0771 (4) | 0.0375 (3) | 0.0716 (4) | 0.0020 (2) | 0.0145 (3) | 0.0072 (2) |
| C7—O5 | 1.415 (3) | C13—N2 | 1.474 (2) |
| C7—H7A | 0.9600 | C13—C12 | 1.523 (2) |
| C7—H7B | 0.9600 | C13—H13 | 0.9800 |
| C7—H7C | 0.9600 | C12—C11 | 1.341 (2) |
| C4—O5 | 1.364 (2) | C12—C15 | 1.475 (2) |
| C4—C5 | 1.389 (2) | C11—N1 | 1.378 (2) |
| C4—C3 | 1.391 (3) | C11—C10 | 1.500 (2) |
| C5—C6 | 1.384 (3) | C14—O6 | 1.230 (2) |
| C5—H5 | 0.9300 | C14—N2 | 1.335 (2) |
| C6—C1 | 1.377 (3) | C14—N1 | 1.369 (2) |
| C6—H6 | 0.9300 | C10—Cl | 1.783 (2) |
| C1—C2 | 1.403 (2) | C10—H10A | 0.9700 |
| C1—C13 | 1.522 (2) | C10—H10B | 0.9700 |
| C2—O3 | 1.370 (2) | C15—O1 | 1.202 (2) |
| C2—C3 | 1.396 (2) | C15—O2 | 1.335 (2) |
| C3—O4 | 1.3791 (19) | C16—O2 | 1.448 (2) |
| C8—O4 | 1.424 (3) | C16—C17 | 1.487 (3) |
| C8—H8A | 0.9600 | C16—H16A | 0.9700 |
| C8—H8B | 0.9600 | C16—H16B | 0.9700 |
| C8—H8C | 0.9600 | C17—H17A | 0.9600 |
| C9—O3 | 1.412 (2) | C17—H17B | 0.9600 |
| C9—H9A | 0.9600 | C17—H17C | 0.9600 |
| C9—H9B | 0.9600 | N2—H2N | 0.8600 |
| C9—H9C | 0.9600 | N1—H1N | 0.8600 |
| O5—C7—H7A | 109.5 | C12—C13—H13 | 108.2 |
| O5—C7—H7B | 109.5 | C11—C12—C15 | 122.12 (15) |
| H7A—C7—H7B | 109.5 | C11—C12—C13 | 120.78 (14) |
| O5—C7—H7C | 109.5 | C15—C12—C13 | 117.09 (13) |
| H7A—C7—H7C | 109.5 | C12—C11—N1 | 120.98 (14) |
| H7B—C7—H7C | 109.5 | C12—C11—C10 | 126.74 (15) |
| O5—C4—C5 | 124.55 (17) | N1—C11—C10 | 112.26 (14) |
| O5—C4—C3 | 115.73 (15) | O6—C14—N2 | 123.26 (15) |
| C5—C4—C3 | 119.71 (16) | O6—C14—N1 | 120.67 (14) |
| C6—C5—C4 | 119.45 (17) | N2—C14—N1 | 116.06 (15) |
| C6—C5—H5 | 120.3 | C11—C10—Cl | 109.90 (13) |
| C4—C5—H5 | 120.3 | C11—C10—H10A | 109.7 |
| C1—C6—C5 | 122.07 (15) | Cl—C10—H10A | 109.7 |
| C1—C6—H6 | 119.0 | C11—C10—H10B | 109.7 |
| C5—C6—H6 | 119.0 | Cl—C10—H10B | 109.7 |
| C6—C1—C2 | 118.47 (15) | H10A—C10—H10B | 108.2 |
| C6—C1—C13 | 121.07 (13) | O1—C15—O2 | 122.11 (16) |
| C2—C1—C13 | 120.39 (15) | O1—C15—C12 | 127.08 (15) |
| O3—C2—C3 | 120.68 (14) | O2—C15—C12 | 110.79 (14) |
| O3—C2—C1 | 119.18 (15) | O2—C16—C17 | 107.07 (17) |
| C3—C2—C1 | 120.11 (16) | O2—C16—H16A | 110.3 |
| O4—C3—C4 | 118.51 (15) | C17—C16—H16A | 110.3 |
| O4—C3—C2 | 121.07 (16) | O2—C16—H16B | 110.3 |
| C4—C3—C2 | 120.16 (14) | C17—C16—H16B | 110.3 |
| O4—C8—H8A | 109.5 | H16A—C16—H16B | 108.6 |
| O4—C8—H8B | 109.5 | C16—C17—H17A | 109.5 |
| H8A—C8—H8B | 109.5 | C16—C17—H17B | 109.5 |
| O4—C8—H8C | 109.5 | H17A—C17—H17B | 109.5 |
| H8A—C8—H8C | 109.5 | C16—C17—H17C | 109.5 |
| H8B—C8—H8C | 109.5 | H17A—C17—H17C | 109.5 |
| O3—C9—H9A | 109.5 | H17B—C17—H17C | 109.5 |
| O3—C9—H9B | 109.5 | C14—N2—C13 | 127.23 (14) |
| H9A—C9—H9B | 109.5 | C14—N2—H2N | 116.4 |
| O3—C9—H9C | 109.5 | C13—N2—H2N | 116.4 |
| H9A—C9—H9C | 109.5 | C14—N1—C11 | 124.02 (14) |
| H9B—C9—H9C | 109.5 | C14—N1—H1N | 118.0 |
| N2—C13—C1 | 109.46 (13) | C11—N1—H1N | 118.0 |
| N2—C13—C12 | 109.91 (12) | C4—O5—C7 | 117.72 (15) |
| C1—C13—C12 | 112.61 (13) | C3—O4—C8 | 117.15 (15) |
| N2—C13—H13 | 108.2 | C2—O3—C9 | 116.65 (15) |
| C1—C13—H13 | 108.2 | C15—O2—C16 | 117.05 (14) |
| O5—C4—C5—C6 | −178.30 (16) | C13—C12—C11—N1 | 0.2 (3) |
| C3—C4—C5—C6 | 0.0 (3) | C15—C12—C11—C10 | 2.3 (3) |
| C4—C5—C6—C1 | −0.7 (3) | C13—C12—C11—C10 | −178.40 (16) |
| C5—C6—C1—C2 | 0.0 (2) | C12—C11—C10—Cl | 103.68 (19) |
| C5—C6—C1—C13 | 176.89 (15) | N1—C11—C10—Cl | −75.01 (18) |
| C6—C1—C2—O3 | −176.62 (14) | C11—C12—C15—O1 | 9.9 (3) |
| C13—C1—C2—O3 | 6.5 (2) | C13—C12—C15—O1 | −169.41 (18) |
| C6—C1—C2—C3 | 1.4 (2) | C11—C12—C15—O2 | −171.87 (16) |
| C13—C1—C2—C3 | −175.49 (14) | C13—C12—C15—O2 | 8.8 (2) |
| O5—C4—C3—O4 | 5.7 (2) | O6—C14—N2—C13 | −173.33 (17) |
| C5—C4—C3—O4 | −172.75 (15) | N1—C14—N2—C13 | 7.7 (3) |
| O5—C4—C3—C2 | 179.86 (15) | C1—C13—N2—C14 | 112.29 (19) |
| C5—C4—C3—C2 | 1.4 (3) | C12—C13—N2—C14 | −11.9 (2) |
| O3—C2—C3—O4 | −10.1 (2) | O6—C14—N1—C11 | −177.08 (18) |
| C1—C2—C3—O4 | 171.86 (15) | N2—C14—N1—C11 | 1.9 (3) |
| O3—C2—C3—C4 | 175.89 (15) | C12—C11—N1—C14 | −5.6 (3) |
| C1—C2—C3—C4 | −2.1 (2) | C10—C11—N1—C14 | 173.14 (17) |
| C6—C1—C13—N2 | −72.80 (18) | C5—C4—O5—C7 | −1.3 (3) |
| C2—C1—C13—N2 | 104.02 (16) | C3—C4—O5—C7 | −179.67 (18) |
| C6—C1—C13—C12 | 49.8 (2) | C4—C3—O4—C8 | −114.3 (2) |
| C2—C1—C13—C12 | −133.40 (15) | C2—C3—O4—C8 | 71.6 (2) |
| N2—C13—C12—C11 | 7.4 (2) | C3—C2—O3—C9 | 71.6 (2) |
| C1—C13—C12—C11 | −114.95 (17) | C1—C2—O3—C9 | −110.4 (2) |
| N2—C13—C12—C15 | −173.26 (14) | O1—C15—O2—C16 | 2.5 (3) |
| C1—C13—C12—C15 | 64.41 (19) | C12—C15—O2—C16 | −175.83 (15) |
| C15—C12—C11—N1 | −179.15 (15) | C17—C16—O2—C15 | 168.35 (19) |
| H··· | ||||
| N1—H1 | 0.86 | 1.95 | 2.812 (2) | 178 |
| N2—H2 | 0.86 | 2.37 | 3.160 (2) | 153 |
| C17—H17 | 0.96 | 2.83 | 3.676 (4) | 147 |
| C10—H10 | 0.97 | 2.14 | 2.864 (3) | 131 |