| Literature DB >> 31391999 |
Victor A Trush1, Nataliia S Kariaka1, Viktoriya V Dyakonenko2, Svitlana V Shishkina2, Vladimir M Amirkhanov1.
Abstract
In the title compound, C20H18NO3P, the C=O and P=O groups of the carbacyl-amido-phosphate (CAPh) fragments are located in a synclinal position relative to each other and are pre-organized for bidentate chelate coordination of metal ions. The N-H group is involved in the formation of an intra-molecular hydrogen bond. In the crystal, mol-ecules do not form strong inter-molecular inter-actions but the mol-ecules are linked via weak C-H⋯π inter-actions, forming chains along [001].Entities:
Keywords: carbacylamidophosphate; crystal structure
Year: 2019 PMID: 31391999 PMCID: PMC6659338 DOI: 10.1107/S205698901900762X
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.
Hydrogen-bond geometry (Å, °)
|
|
| H⋯ |
|
|
|---|---|---|---|---|
| N1—H1⋯O3 | 0.86 | 1.93 | 2.628 (2) | 137 |
| C18—H18⋯ | 0.93 | 2.99 | 3.864 (3) | 158 |
Symmetry code: (i) .
Figure 2A section of a chain along the c axis formed by weak C—H⋯π interactions (shown as blue dotted lines).
Figure 3The crystal packing of the title compound viewed along the b axis.
Figure 4The two-step reaction for the preparation of the title compound (I).
Experimental details
| Crystal data | |
| Chemical formula | C20H18NO3P |
|
| 351.32 |
| Crystal system, space group | Orthorhombic, |
| Temperature (K) | 294 |
|
| 8.317 (2), 12.657 (2), 16.763 (3) |
|
| 1764.6 (6) |
|
| 4 |
| Radiation type | Mo |
| μ (mm−1) | 0.17 |
| Crystal size (mm) | 0.5 × 0.4 × 0.3 |
| Data collection | |
| Diffractometer | Rigaku Oxford Diffraction Xcalibur, Sapphire3 |
| Absorption correction | Multi-scan ( |
|
| 0.986, 1.000 |
| No. of measured, independent and observed [ | 18281, 5691, 4247 |
|
| 0.032 |
| (sin θ/λ)max (Å−1) | 0.749 |
| Refinement | |
|
| 0.043, 0.113, 1.11 |
| No. of reflections | 5691 |
| No. of parameters | 227 |
| H-atom treatment | H-atom parameters constrained |
| Δρmax, Δρmin (e Å−3) | 0.23, −0.32 |
| Absolute structure | Flack |
| Absolute structure parameter | 0.01 (4) |
Computer programs: CrysAlis PRO (Rigaku OD, 2018 ▸), SHELXT (Sheldrick, 2015a ▸), SHELXL (Sheldrick, 2015b ▸) and OLEX2 (Dolomanov et al., 2009 ▸).
| C20H18NO3P | |
| Mo | |
| Orthorhombic, | Cell parameters from 5505 reflections |
| θ = 3.2–30.6° | |
| µ = 0.17 mm−1 | |
| Block, colourless | |
| 0.5 × 0.4 × 0.3 mm | |
| Rigaku Oxford Diffraction Xcalibur, Sapphire3 diffractometer | 5691 independent reflections |
| Radiation source: fine-focus sealed X-ray tube, Enhance (Mo) X-ray Source | 4247 reflections with |
| Graphite monochromator | |
| Detector resolution: 16.1827 pixels mm-1 | θmax = 32.2°, θmin = 3.2° |
| ω scans | |
| Absorption correction: multi-scan (CrysAlis PRO; Rigaku OD, 2018) | |
| 18281 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 = 0.23 e Å−3 | |
| 5691 reflections | Δρmin = −0.32 e Å−3 |
| 227 parameters | Absolute structure: Flack |
| 0 restraints | Absolute structure parameter: 0.01 (4) |
| 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. |
| P1 | 0.75683 (6) | 0.34774 (4) | 0.68054 (3) | 0.03788 (14) | |
| O1 | 0.8432 (2) | 0.33778 (15) | 0.75665 (10) | 0.0522 (4) | |
| O2 | 0.8579 (2) | 0.57607 (14) | 0.70208 (11) | 0.0601 (5) | |
| O3 | 0.8588 (2) | 0.48946 (15) | 0.46564 (10) | 0.0574 (5) | |
| N1 | 0.8291 (2) | 0.43972 (14) | 0.61711 (11) | 0.0420 (4) | |
| H1 | 0.839131 | 0.420776 | 0.568098 | 0.050* | |
| C1 | 0.7720 (3) | 0.23277 (18) | 0.61801 (14) | 0.0454 (5) | |
| C2 | 0.6930 (4) | 0.2254 (2) | 0.54479 (17) | 0.0585 (7) | |
| H2 | 0.624578 | 0.279355 | 0.528470 | 0.070* | |
| C3 | 0.7160 (4) | 0.1383 (3) | 0.4964 (2) | 0.0768 (10) | |
| H3 | 0.665554 | 0.134563 | 0.447009 | 0.092* | |
| C4 | 0.8138 (5) | 0.0571 (3) | 0.5216 (2) | 0.0815 (11) | |
| H4 | 0.827802 | −0.001937 | 0.489292 | 0.098* | |
| C5 | 0.8912 (5) | 0.0626 (3) | 0.5942 (2) | 0.0802 (10) | |
| H5 | 0.956231 | 0.007064 | 0.610905 | 0.096* | |
| C6 | 0.8722 (3) | 0.1509 (2) | 0.64224 (18) | 0.0591 (6) | |
| H6 | 0.926469 | 0.155311 | 0.690643 | 0.071* | |
| C7 | 0.5462 (3) | 0.37685 (18) | 0.69283 (13) | 0.0410 (5) | |
| C8 | 0.4455 (3) | 0.2966 (2) | 0.72018 (16) | 0.0528 (6) | |
| H8 | 0.486311 | 0.229064 | 0.728194 | 0.063* | |
| C9 | 0.2844 (3) | 0.3171 (3) | 0.73552 (18) | 0.0653 (8) | |
| H9 | 0.217061 | 0.262777 | 0.752171 | 0.078* | |
| C10 | 0.2247 (3) | 0.4165 (3) | 0.72626 (17) | 0.0669 (8) | |
| H10 | 0.117415 | 0.430192 | 0.738074 | 0.080* | |
| C11 | 0.3223 (3) | 0.4969 (3) | 0.6995 (2) | 0.0706 (9) | |
| H11 | 0.280930 | 0.564645 | 0.692976 | 0.085* | |
| C12 | 0.4832 (3) | 0.4765 (2) | 0.68216 (19) | 0.0553 (6) | |
| H12 | 0.548597 | 0.530641 | 0.663257 | 0.066* | |
| C13 | 0.8734 (3) | 0.54108 (18) | 0.63499 (14) | 0.0405 (5) | |
| C14 | 0.9427 (3) | 0.60615 (19) | 0.56888 (14) | 0.0417 (5) | |
| C15 | 1.0164 (3) | 0.7003 (2) | 0.59123 (18) | 0.0557 (6) | |
| H15 | 1.020894 | 0.718620 | 0.644915 | 0.067* | |
| C16 | 1.0828 (4) | 0.7669 (3) | 0.5352 (3) | 0.0769 (10) | |
| H16 | 1.130614 | 0.830077 | 0.550753 | 0.092* | |
| C17 | 1.0775 (4) | 0.7386 (3) | 0.4553 (2) | 0.0814 (10) | |
| H17 | 1.124742 | 0.782560 | 0.417536 | 0.098* | |
| C18 | 1.0042 (4) | 0.6472 (3) | 0.43069 (19) | 0.0662 (7) | |
| H18 | 0.999839 | 0.630235 | 0.376750 | 0.079* | |
| C19 | 0.9367 (3) | 0.58040 (19) | 0.48673 (15) | 0.0460 (5) | |
| C20 | 0.8551 (5) | 0.4599 (3) | 0.38290 (17) | 0.0768 (9) | |
| H20A | 0.800672 | 0.513521 | 0.352765 | 0.115* | |
| H20B | 0.799139 | 0.393959 | 0.377171 | 0.115* | |
| H20C | 0.963101 | 0.452306 | 0.363487 | 0.115* |
| P1 | 0.0406 (3) | 0.0420 (3) | 0.0310 (2) | −0.0018 (2) | 0.0008 (2) | 0.0024 (2) |
| O1 | 0.0519 (8) | 0.0658 (11) | 0.0389 (8) | 0.0029 (8) | −0.0059 (7) | 0.0059 (8) |
| O2 | 0.0794 (12) | 0.0568 (11) | 0.0442 (10) | −0.0133 (9) | 0.0112 (9) | −0.0149 (8) |
| O3 | 0.0811 (12) | 0.0574 (11) | 0.0335 (9) | −0.0146 (9) | 0.0021 (9) | 0.0008 (8) |
| N1 | 0.0548 (11) | 0.0402 (9) | 0.0311 (9) | −0.0092 (8) | 0.0059 (8) | −0.0012 (7) |
| C1 | 0.0509 (12) | 0.0405 (11) | 0.0446 (12) | −0.0045 (9) | 0.0086 (10) | 0.0009 (9) |
| C2 | 0.0654 (16) | 0.0594 (16) | 0.0508 (15) | −0.0080 (12) | 0.0012 (12) | −0.0084 (12) |
| C3 | 0.089 (2) | 0.083 (2) | 0.0590 (18) | −0.0218 (19) | 0.0111 (16) | −0.0255 (16) |
| C4 | 0.097 (3) | 0.0608 (19) | 0.086 (3) | −0.0094 (17) | 0.035 (2) | −0.0242 (18) |
| C5 | 0.092 (2) | 0.0549 (17) | 0.094 (3) | 0.0149 (16) | 0.027 (2) | −0.0013 (17) |
| C6 | 0.0638 (15) | 0.0519 (14) | 0.0616 (16) | 0.0086 (13) | 0.0087 (13) | 0.0025 (13) |
| C7 | 0.0408 (10) | 0.0489 (12) | 0.0331 (11) | −0.0032 (8) | −0.0014 (8) | −0.0044 (9) |
| C8 | 0.0548 (13) | 0.0565 (15) | 0.0469 (14) | −0.0089 (12) | 0.0052 (11) | 0.0011 (11) |
| C9 | 0.0491 (14) | 0.095 (2) | 0.0517 (15) | −0.0219 (14) | 0.0053 (11) | −0.0048 (14) |
| C10 | 0.0392 (13) | 0.104 (2) | 0.0573 (17) | 0.0016 (15) | −0.0015 (11) | −0.0209 (16) |
| C11 | 0.0511 (15) | 0.076 (2) | 0.085 (2) | 0.0148 (14) | −0.0076 (15) | −0.0170 (17) |
| C12 | 0.0454 (12) | 0.0560 (14) | 0.0646 (16) | −0.0004 (10) | −0.0037 (12) | 0.0033 (13) |
| C13 | 0.0398 (10) | 0.0424 (12) | 0.0391 (11) | −0.0023 (9) | 0.0021 (9) | −0.0032 (9) |
| C14 | 0.0362 (10) | 0.0422 (11) | 0.0466 (13) | −0.0018 (9) | 0.0011 (9) | 0.0036 (10) |
| C15 | 0.0512 (13) | 0.0511 (14) | 0.0648 (17) | −0.0109 (11) | 0.0025 (12) | −0.0049 (12) |
| C16 | 0.0706 (19) | 0.0583 (18) | 0.102 (3) | −0.0270 (15) | 0.0064 (18) | 0.0094 (17) |
| C17 | 0.084 (2) | 0.078 (2) | 0.083 (3) | −0.0257 (18) | 0.0138 (19) | 0.0254 (19) |
| C18 | 0.0763 (18) | 0.0690 (18) | 0.0532 (15) | −0.0094 (16) | 0.0102 (14) | 0.0132 (14) |
| C19 | 0.0463 (12) | 0.0458 (13) | 0.0460 (13) | −0.0034 (10) | 0.0053 (10) | 0.0063 (10) |
| C20 | 0.107 (3) | 0.086 (2) | 0.0374 (14) | −0.012 (2) | 0.0033 (16) | −0.0083 (14) |
| P1—O1 | 1.4695 (17) | C8—C9 | 1.389 (4) |
| P1—N1 | 1.6871 (19) | C9—H9 | 0.9300 |
| P1—C1 | 1.798 (2) | C9—C10 | 1.361 (5) |
| P1—C7 | 1.802 (2) | C10—H10 | 0.9300 |
| O2—C13 | 1.215 (3) | C10—C11 | 1.377 (5) |
| O3—C19 | 1.368 (3) | C11—H11 | 0.9300 |
| O3—C20 | 1.437 (3) | C11—C12 | 1.394 (4) |
| N1—H1 | 0.8600 | C12—H12 | 0.9300 |
| N1—C13 | 1.368 (3) | C13—C14 | 1.496 (3) |
| C1—C2 | 1.396 (4) | C14—C15 | 1.392 (3) |
| C1—C6 | 1.391 (4) | C14—C19 | 1.416 (3) |
| C2—H2 | 0.9300 | C15—H15 | 0.9300 |
| C2—C3 | 1.382 (4) | C15—C16 | 1.377 (4) |
| C3—H3 | 0.9300 | C16—H16 | 0.9300 |
| C3—C4 | 1.377 (5) | C16—C17 | 1.388 (5) |
| C4—H4 | 0.9300 | C17—H17 | 0.9300 |
| C4—C5 | 1.378 (6) | C17—C18 | 1.371 (5) |
| C5—H5 | 0.9300 | C18—H18 | 0.9300 |
| C5—C6 | 1.387 (4) | C18—C19 | 1.382 (4) |
| C6—H6 | 0.9300 | C20—H20A | 0.9600 |
| C7—C8 | 1.394 (3) | C20—H20B | 0.9600 |
| C7—C12 | 1.378 (3) | C20—H20C | 0.9600 |
| C8—H8 | 0.9300 | ||
| O1—P1—N1 | 115.61 (10) | C9—C10—H10 | 119.8 |
| O1—P1—C1 | 113.72 (11) | C9—C10—C11 | 120.3 (2) |
| O1—P1—C7 | 113.17 (10) | C11—C10—H10 | 119.8 |
| N1—P1—C1 | 99.56 (10) | C10—C11—H11 | 120.1 |
| N1—P1—C7 | 106.09 (11) | C10—C11—C12 | 119.8 (3) |
| C1—P1—C7 | 107.49 (11) | C12—C11—H11 | 120.1 |
| C19—O3—C20 | 118.6 (2) | C7—C12—C11 | 120.5 (3) |
| P1—N1—H1 | 116.4 | C7—C12—H12 | 119.7 |
| C13—N1—P1 | 127.23 (16) | C11—C12—H12 | 119.7 |
| C13—N1—H1 | 116.4 | O2—C13—N1 | 121.0 (2) |
| C2—C1—P1 | 122.3 (2) | O2—C13—C14 | 121.7 (2) |
| C6—C1—P1 | 118.4 (2) | N1—C13—C14 | 117.24 (19) |
| C6—C1—C2 | 119.3 (2) | C15—C14—C13 | 116.2 (2) |
| C1—C2—H2 | 119.9 | C15—C14—C19 | 118.3 (2) |
| C3—C2—C1 | 120.3 (3) | C19—C14—C13 | 125.4 (2) |
| C3—C2—H2 | 119.9 | C14—C15—H15 | 119.4 |
| C2—C3—H3 | 120.1 | C16—C15—C14 | 121.1 (3) |
| C4—C3—C2 | 119.9 (3) | C16—C15—H15 | 119.4 |
| C4—C3—H3 | 120.1 | C15—C16—H16 | 120.4 |
| C3—C4—H4 | 119.7 | C15—C16—C17 | 119.2 (3) |
| C3—C4—C5 | 120.6 (3) | C17—C16—H16 | 120.4 |
| C5—C4—H4 | 119.7 | C16—C17—H17 | 119.2 |
| C4—C5—H5 | 120.0 | C18—C17—C16 | 121.5 (3) |
| C4—C5—C6 | 120.0 (3) | C18—C17—H17 | 119.2 |
| C6—C5—H5 | 120.0 | C17—C18—H18 | 120.3 |
| C1—C6—H6 | 120.0 | C17—C18—C19 | 119.5 (3) |
| C5—C6—C1 | 119.9 (3) | C19—C18—H18 | 120.3 |
| C5—C6—H6 | 120.0 | O3—C19—C14 | 117.5 (2) |
| C8—C7—P1 | 118.24 (19) | O3—C19—C18 | 122.1 (2) |
| C12—C7—P1 | 122.82 (18) | C18—C19—C14 | 120.4 (2) |
| C12—C7—C8 | 118.8 (2) | O3—C20—H20A | 109.5 |
| C7—C8—H8 | 119.8 | O3—C20—H20B | 109.5 |
| C9—C8—C7 | 120.3 (3) | O3—C20—H20C | 109.5 |
| C9—C8—H8 | 119.8 | H20A—C20—H20B | 109.5 |
| C8—C9—H9 | 119.9 | H20A—C20—H20C | 109.5 |
| C10—C9—C8 | 120.2 (3) | H20B—C20—H20C | 109.5 |
| C10—C9—H9 | 119.9 | ||
| P1—N1—C13—O2 | −2.7 (3) | C3—C4—C5—C6 | −0.6 (5) |
| P1—N1—C13—C14 | 176.74 (16) | C4—C5—C6—C1 | 1.5 (5) |
| P1—C1—C2—C3 | 176.0 (2) | C6—C1—C2—C3 | −0.9 (4) |
| P1—C1—C6—C5 | −177.8 (2) | C7—P1—N1—C13 | 80.8 (2) |
| P1—C7—C8—C9 | 175.8 (2) | C7—P1—C1—C2 | 51.3 (2) |
| P1—C7—C12—C11 | −174.1 (2) | C7—P1—C1—C6 | −131.8 (2) |
| O1—P1—N1—C13 | −45.5 (2) | C7—C8—C9—C10 | −2.0 (4) |
| O1—P1—C1—C2 | 177.4 (2) | C8—C7—C12—C11 | 0.9 (4) |
| O1—P1—C1—C6 | −5.7 (2) | C8—C9—C10—C11 | 1.8 (4) |
| O1—P1—C7—C8 | −72.7 (2) | C9—C10—C11—C12 | −0.3 (5) |
| O1—P1—C7—C12 | 102.2 (2) | C10—C11—C12—C7 | −1.0 (5) |
| O2—C13—C14—C15 | 12.0 (3) | C12—C7—C8—C9 | 0.6 (4) |
| O2—C13—C14—C19 | −166.9 (2) | C13—C14—C15—C16 | −179.3 (2) |
| N1—P1—C1—C2 | −59.0 (2) | C13—C14—C19—O3 | 1.2 (4) |
| N1—P1—C1—C6 | 117.90 (19) | C13—C14—C19—C18 | 179.5 (2) |
| N1—P1—C7—C8 | 159.47 (19) | C14—C15—C16—C17 | −0.8 (5) |
| N1—P1—C7—C12 | −25.6 (2) | C15—C14—C19—O3 | −177.7 (2) |
| N1—C13—C14—C15 | −167.5 (2) | C15—C14—C19—C18 | 0.6 (4) |
| N1—C13—C14—C19 | 13.6 (3) | C15—C16—C17—C18 | 1.7 (6) |
| C1—P1—N1—C13 | −167.8 (2) | C16—C17—C18—C19 | −1.4 (5) |
| C1—P1—C7—C8 | 53.7 (2) | C17—C18—C19—O3 | 178.4 (3) |
| C1—P1—C7—C12 | −131.3 (2) | C17—C18—C19—C14 | 0.2 (4) |
| C1—C2—C3—C4 | 1.8 (5) | C19—C14—C15—C16 | −0.3 (4) |
| C2—C1—C6—C5 | −0.7 (4) | C20—O3—C19—C14 | −178.1 (3) |
| C2—C3—C4—C5 | −1.0 (5) | C20—O3—C19—C18 | 3.6 (4) |
| H··· | ||||
| N1—H1···O3 | 0.86 | 1.93 | 2.628 (2) | 137 |
| C18—H18··· | 0.93 | 2.99 | 3.864 (3) | 158 |