| Literature DB >> 24860357 |
Yohsuke Nikawa1, Kyoko Fujita2, Keiichi Noguchi3, Hiroyuki Ohno2.
Abstract
In the crystal structure of the title compound, C5H14NO4P·H2O, the zwitterionic phospho-choline mol-ecules are connected by an O-H⋯O hydrogen bond between the phosphate groups, forming a zigzag chain along the b-axis direction. The chains are further connected through O-H⋯O hydrogen bonds involving water mol-ecules, forming a layer parallel to (101). Three and one C-H⋯O inter-actions are also observed in the layer and between the layers, respectively. The conformation of the N-C-C-O backbone is gauche with a torsion angle of -75.8 (2)°Entities:
Year: 2014 PMID: 24860357 PMCID: PMC4011268 DOI: 10.1107/S160053681400779X
Source DB: PubMed Journal: Acta Crystallogr Sect E Struct Rep Online ISSN: 1600-5368
| C5H14NO4P·H2O | |
| Monoclinic, | Cu |
| Hall symbol: -P 2yn | Cell parameters from 15511 reflections |
| θ = 3.4–68.2° | |
| µ = 2.59 mm−1 | |
| β = 105.800 (1)° | Block, colorless |
| 0.60 × 0.40 × 0.40 mm | |
| Rigaku R-AXIS RAPID diffractometer | 1715 independent reflections |
| Radiation source: rotating anode | 1632 reflections with |
| Graphite monochromator | |
| Detector resolution: 10.000 pixels mm-1 | θmax = 68.2°, θmin = 4.8° |
| ω scans | |
| Absorption correction: numerical ( | |
| 16036 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 atoms treated by a mixture of independent and constrained refinement | |
| 1715 reflections | (Δ/σ)max < 0.001 |
| 121 parameters | Δρmax = 0.21 e Å−3 |
| 0 restraints | Δρmin = −0.50 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 |
| P1 | 0.19372 (4) | −0.29328 (6) | 0.34891 (3) | 0.02017 (18) | |
| O1 | 0.26794 (11) | −0.11051 (17) | 0.41531 (9) | 0.0250 (3) | |
| O2 | 0.11276 (14) | −0.2045 (2) | 0.24371 (10) | 0.0340 (4) | |
| H2O | 0.149 (3) | −0.124 (4) | 0.219 (2) | 0.058 (8)* | |
| O3 | 0.09520 (13) | −0.3768 (2) | 0.39911 (10) | 0.0316 (3) | |
| O4 | 0.30448 (13) | −0.4207 (2) | 0.34008 (11) | 0.0341 (3) | |
| N1 | 0.31816 (14) | 0.1794 (2) | 0.60363 (11) | 0.0216 (3) | |
| C1 | 0.18974 (19) | 0.0567 (3) | 0.42416 (14) | 0.0304 (4) | |
| H1A | 0.1186 | 0.0186 | 0.4561 | 0.036* | |
| H1B | 0.1469 | 0.1091 | 0.3547 | 0.036* | |
| C2 | 0.27544 (19) | 0.2105 (2) | 0.48844 (13) | 0.0264 (4) | |
| H2A | 0.2266 | 0.3353 | 0.4746 | 0.032* | |
| H2B | 0.3567 | 0.2245 | 0.4646 | 0.032* | |
| C3 | 0.20152 (19) | 0.1449 (3) | 0.64541 (15) | 0.0340 (4) | |
| H3A | 0.2310 | 0.1464 | 0.7208 | 0.041* | |
| H3B | 0.1619 | 0.0184 | 0.6217 | 0.041* | |
| H3C | 0.1351 | 0.2473 | 0.6211 | 0.041* | |
| C4 | 0.4142 (2) | 0.0135 (3) | 0.63344 (15) | 0.0367 (5) | |
| H4A | 0.3717 | −0.1062 | 0.6013 | 0.044* | |
| H4B | 0.4401 | −0.0015 | 0.7085 | 0.044* | |
| H4C | 0.4936 | 0.0399 | 0.6100 | 0.044* | |
| C5 | 0.3865 (2) | 0.3617 (3) | 0.65134 (16) | 0.0355 (5) | |
| H5A | 0.4193 | 0.3447 | 0.7261 | 0.043* | |
| H5B | 0.3232 | 0.4701 | 0.6361 | 0.043* | |
| H5C | 0.4616 | 0.3896 | 0.6230 | 0.043* | |
| O5 | 0.58971 (16) | 0.8315 (2) | 0.10139 (12) | 0.0367 (4) | |
| H5OA | 0.593 (3) | 0.838 (4) | 0.045 (2) | 0.043 (7)* | |
| H5OB | 0.539 (3) | 0.905 (4) | 0.106 (2) | 0.046 (8)* |
| P1 | 0.0221 (3) | 0.0191 (3) | 0.0200 (3) | −0.00203 (15) | 0.00695 (18) | −0.00011 (15) |
| O1 | 0.0229 (6) | 0.0223 (6) | 0.0273 (6) | 0.0025 (5) | 0.0025 (5) | −0.0048 (5) |
| O2 | 0.0380 (8) | 0.0316 (8) | 0.0263 (7) | −0.0155 (6) | −0.0015 (6) | 0.0066 (5) |
| O3 | 0.0314 (7) | 0.0330 (7) | 0.0341 (7) | −0.0039 (6) | 0.0151 (6) | 0.0046 (6) |
| O4 | 0.0311 (7) | 0.0313 (7) | 0.0423 (8) | −0.0002 (6) | 0.0141 (6) | −0.0127 (6) |
| N1 | 0.0195 (7) | 0.0220 (7) | 0.0227 (7) | 0.0027 (5) | 0.0046 (6) | −0.0014 (5) |
| C1 | 0.0308 (9) | 0.0274 (10) | 0.0276 (9) | 0.0099 (8) | −0.0012 (7) | −0.0058 (7) |
| C2 | 0.0348 (10) | 0.0208 (9) | 0.0230 (9) | 0.0030 (7) | 0.0067 (7) | 0.0025 (6) |
| C3 | 0.0297 (10) | 0.0397 (11) | 0.0357 (10) | −0.0025 (8) | 0.0144 (8) | 0.0026 (9) |
| C4 | 0.0380 (10) | 0.0382 (11) | 0.0292 (10) | 0.0194 (9) | 0.0013 (8) | −0.0007 (8) |
| C5 | 0.0308 (10) | 0.0356 (11) | 0.0397 (11) | −0.0083 (8) | 0.0087 (8) | −0.0147 (9) |
| O5 | 0.0415 (9) | 0.0374 (8) | 0.0321 (8) | 0.0114 (7) | 0.0115 (7) | 0.0050 (6) |
| P1—O4 | 1.4812 (13) | C2—H2A | 0.9900 |
| P1—O3 | 1.4918 (13) | C2—H2B | 0.9900 |
| P1—O2 | 1.5655 (13) | C3—H3A | 0.9800 |
| P1—O1 | 1.6154 (12) | C3—H3B | 0.9800 |
| O1—C1 | 1.435 (2) | C3—H3C | 0.9800 |
| O2—H2O | 0.79 (3) | C4—H4A | 0.9800 |
| N1—C3 | 1.493 (2) | C4—H4B | 0.9800 |
| N1—C5 | 1.500 (2) | C4—H4C | 0.9800 |
| N1—C4 | 1.501 (2) | C5—H5A | 0.9800 |
| N1—C2 | 1.512 (2) | C5—H5B | 0.9800 |
| C1—C2 | 1.501 (2) | C5—H5C | 0.9800 |
| C1—H1A | 0.9900 | O5—H5OA | 0.77 (3) |
| C1—H1B | 0.9900 | O5—H5OB | 0.74 (3) |
| O4—P1—O3 | 117.19 (8) | C1—C2—H2B | 108.0 |
| O4—P1—O2 | 113.47 (8) | N1—C2—H2B | 108.0 |
| O3—P1—O2 | 107.13 (8) | H2A—C2—H2B | 107.2 |
| O4—P1—O1 | 103.88 (7) | N1—C3—H3A | 109.5 |
| O3—P1—O1 | 109.49 (7) | N1—C3—H3B | 109.5 |
| O2—P1—O1 | 104.93 (7) | H3A—C3—H3B | 109.5 |
| C1—O1—P1 | 118.31 (10) | N1—C3—H3C | 109.5 |
| P1—O2—H2O | 117 (2) | H3A—C3—H3C | 109.5 |
| C3—N1—C5 | 108.18 (14) | H3B—C3—H3C | 109.5 |
| C3—N1—C4 | 109.31 (15) | N1—C4—H4A | 109.5 |
| C5—N1—C4 | 108.53 (15) | N1—C4—H4B | 109.5 |
| C3—N1—C2 | 111.65 (13) | H4A—C4—H4B | 109.5 |
| C5—N1—C2 | 107.20 (14) | N1—C4—H4C | 109.5 |
| C4—N1—C2 | 111.84 (14) | H4A—C4—H4C | 109.5 |
| O1—C1—C2 | 110.62 (14) | H4B—C4—H4C | 109.5 |
| O1—C1—H1A | 109.5 | N1—C5—H5A | 109.5 |
| C2—C1—H1A | 109.5 | N1—C5—H5B | 109.5 |
| O1—C1—H1B | 109.5 | H5A—C5—H5B | 109.5 |
| C2—C1—H1B | 109.5 | N1—C5—H5C | 109.5 |
| H1A—C1—H1B | 108.1 | H5A—C5—H5C | 109.5 |
| C1—C2—N1 | 117.20 (15) | H5B—C5—H5C | 109.5 |
| C1—C2—H2A | 108.0 | H5OA—O5—H5OB | 105 (3) |
| N1—C2—H2A | 108.0 | ||
| O4—P1—O1—C1 | 170.10 (13) | O1—C1—C2—N1 | −75.8 (2) |
| O3—P1—O1—C1 | −63.97 (14) | C3—N1—C2—C1 | −54.4 (2) |
| O2—P1—O1—C1 | 50.72 (15) | C5—N1—C2—C1 | −172.72 (15) |
| P1—O1—C1—C2 | 179.94 (12) | C4—N1—C2—C1 | 68.4 (2) |
| H··· | ||||
| O2—H2 | 0.80 (3) | 1.74 (3) | 2.525 (2) | 167 (3) |
| O5—H5 | 0.77 (3) | 1.99 (3) | 2.764 (2) | 175 (3) |
| O5—H5 | 0.75 (3) | 2.04 (3) | 2.784 (2) | 172 (3) |
| C2—H2 | 0.99 | 2.47 | 3.440 (2) | 167 |
| C3—H3 | 0.98 | 2.52 | 3.479 (3) | 167 |
| C3—H3 | 0.98 | 2.51 | 3.388 (2) | 149 |
| C5—H5 | 0.98 | 2.36 | 3.219 (3) | 146 |
Hydrogen-bond geometry (Å, °)
|
|
| H⋯ |
|
|
|---|---|---|---|---|
| O2—H2 | 0.80 (3) | 1.74 (3) | 2.525 (2) | 167 (3) |
| O5—H5 | 0.77 (3) | 1.99 (3) | 2.764 (2) | 175 (3) |
| O5—H5 | 0.75 (3) | 2.04 (3) | 2.784 (2) | 172 (3) |
| C2—H2 | 0.99 | 2.47 | 3.440 (2) | 167 |
| C3—H3 | 0.98 | 2.52 | 3.479 (3) | 167 |
| C3—H3 | 0.98 | 2.51 | 3.388 (2) | 149 |
| C5—H5 | 0.98 | 2.36 | 3.219 (3) | 146 |
Symmetry codes: (i) ; (ii) ; (iii) ; (iv) ; (v) ; (vi) ; (vii) .