| Literature DB >> 28435729 |
Bruno Leonardo Silva1, Ricardo José Alves1, Nivaldo Lúcio Speziali2.
Abstract
The synthesis and crystal structure of the title compound, C14H19NO8·H2O, prepared in three steps from 6-O-ethyl-1,2;3,4-di-O-iso-propyl-idene-α-d-galacto-pyran-ose using protecting-group strategies employed in carbohydrate chemistry, is reported. The asymmetric unit consists of a single galactoside mol-ecule, in which the pyran-oid ring has a 4C1 conformation and the 4-nitro-phenyl moiety is essentially planar. In the crystal, each carbohydrate is surrounded by other d-galactose residues and water mol-ecules, linked by O-H⋯O hydrogen bonds involving all hy-droxy groups, giving a two-dimensional substructure lying parallel to (100) and extended into three dimensions by C-H⋯O inter-actions.Entities:
Keywords: crystal structure; d-galactose; hydrogen bonding; nitrophenyl galactopyranosides; pyranoid ring
Year: 2017 PMID: 28435729 PMCID: PMC5382630 DOI: 10.1107/S2056989017004595
Source DB: PubMed Journal: Acta Crystallogr E Crystallogr Commun
Figure 1The molecular structure of the title compound with the atom labelling. Displacement ellipsoids are drawn at the 50% probability level.
Hydrogen-bond geometry (Å, °)
|
|
| H⋯ |
|
|
|---|---|---|---|---|
| O2—H2 | 0.82 | 1.85 | 2.670 (2) | 179 |
| O3—H3 | 0.82 | 1.91 | 2.711 (2) | 167 |
| O4—H4 | 0.82 | 1.97 | 2.785 (2) | 170 |
| O1 | 0.89 | 1.90 | 2.776 (3) | 166 |
| O1 | 0.89 | 2.39 | 3.208 (2) | 154 |
| C3—H3 | 0.98 | 2.35 | 3.283 (3) | 158 |
| C13—H13 | 0.97 | 2.55 | 3.167 (3) | 121 |
| C13—H13 | 0.97 | 2.53 | 3.173 (3) | 123 |
Symmetry codes: (i) ; (ii) ; (iii) ; (iv) ; (v) ; (vi) ; (vii) .
Figure 2Selected interactions in the crystal lattice with O—H⋯O hydrogen bonds shown as turquoise dashed lines and C—H⋯O interactions shown as blue dashed lines.
Figure 3Crystal packing of the title compound, showing the stacked galactoside molecules along the a axis. For clarity, H atoms are not shown.
Figure 4Synthesis of the title compound (I): (i) AcCl, MeOH, HCl(aq), room temperature, closed system; (ii) 4-nitrophenol, LiOH·H2O, acetone/H2O, room temperature; (iii) MeONa/MeOH, CH2Cl2, 273 K. The water molecule of crystallization of (I) is not represented.
Experimental details
| Crystal data | |
| Chemical formula | C14H19NO8·H2O |
|
| 347.32 |
| Crystal system, space group | Orthorhombic, |
| Temperature (K) | 293 |
|
| 5.1628 (3), 8.1593 (3), 38.5755 (16) |
|
| 1624.99 (13) |
|
| 4 |
| Radiation type | Mo |
| μ (mm−1) | 0.12 |
| Crystal size (mm) | 0.20 × 0.15 × 0.10 |
| Data collection | |
| Diffractometer | Rigaku OD Xcalibur, Atlas, Gemini Ultra |
| Absorption correction | Multi-scan ( |
|
| 0.835, 1.000 |
| No. of measured, independent and observed [ | 26976, 4265, 3597 |
|
| 0.038 |
| (sin θ/λ)max (Å−1) | 0.704 |
| Refinement | |
|
| 0.046, 0.108, 1.08 |
| No. of reflections | 4265 |
| No. of parameters | 218 |
| H-atom treatment | H-atom parameters constrained |
| Δρmax, Δρmin (e Å−3) | 0.20, −0.23 |
Computer programs: CrysAlis PRO (Rigaku OD, 2015 ▸), SHELXS97 and SHELXTL (Sheldrick, 2008 ▸), SHELXL2016 (Sheldrick, 2015 ▸), Mercury (Macrae et al., 2008 ▸), PLATON (Spek, 2009 ▸) and publCIF (Westrip, 2010 ▸).
| C14H19NO8·H2O | |
| Melting point: 424.5 K | |
| Orthorhombic, | Mo |
| Hall symbol: P 2ac 2ab | Cell parameters from 8847 reflections |
| θ = 2.5–28.5° | |
| µ = 0.12 mm−1 | |
| Rod, colourless | |
| 0.20 × 0.15 × 0.10 mm | |
| Rigaku OD Xcalibur, Atlas, Gemini Ultra diffractometer | 4265 independent reflections |
| Radiation source: fine-focus sealed X-ray tube, Enhance (Mo) X-ray Source | 3597 reflections with |
| Graphite monochromator | |
| Detector resolution: 10.4186 pixels mm-1 | θmax = 30.0°, θmin = 2.5° |
| ω scans | |
| Absorption correction: multi-scan (CrysAlis PRO; Rigaku OD, 2015) | |
| 26976 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 | |
| 4265 reflections | (Δ/σ)max < 0.001 |
| 218 parameters | Δρmax = 0.20 e Å−3 |
| 0 restraints | Δρmin = −0.23 e Å−3 |
| 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 | 0.2973 (3) | 0.04259 (19) | 0.13258 (4) | 0.0359 (4) | |
| O2 | 0.3964 (4) | −0.11807 (19) | 0.06875 (4) | 0.0413 (4) | |
| H2B | 0.3333 | −0.1933 | 0.0800 | 0.062* | |
| O3 | 0.1726 (3) | 0.0335 (2) | 0.00904 (4) | 0.0331 (4) | |
| H3B | 0.0444 | −0.0206 | 0.0142 | 0.050* | |
| O4 | −0.1450 (3) | 0.2630 (2) | 0.04353 (4) | 0.0340 (4) | |
| H4B | −0.2160 | 0.3194 | 0.0287 | 0.051* | |
| O5 | 0.1951 (3) | 0.27596 (18) | 0.10442 (3) | 0.0300 (3) | |
| O6 | 0.1929 (4) | 0.63541 (19) | 0.10524 (4) | 0.0388 (4) | |
| O11 | 1.0131 (8) | 0.2628 (5) | 0.25526 (8) | 0.1100 (12) | |
| O12 | 0.7670 (9) | 0.0893 (4) | 0.28005 (6) | 0.1237 (14) | |
| N1 | 0.8375 (8) | 0.1651 (4) | 0.25473 (7) | 0.0748 (10) | |
| C1 | 0.3383 (4) | 0.1298 (3) | 0.10156 (5) | 0.0285 (4) | |
| H1 | 0.5228 | 0.1538 | 0.0984 | 0.034* | |
| C2 | 0.2387 (5) | 0.0236 (3) | 0.07205 (5) | 0.0283 (4) | |
| H2A | 0.0581 | −0.0078 | 0.0762 | 0.034* | |
| C3 | 0.2607 (4) | 0.1215 (2) | 0.03863 (5) | 0.0257 (4) | |
| H3A | 0.4454 | 0.1433 | 0.0350 | 0.031* | |
| C4 | 0.1277 (4) | 0.2877 (3) | 0.04194 (5) | 0.0254 (4) | |
| H4A | 0.1685 | 0.3539 | 0.0215 | 0.030* | |
| C5 | 0.2224 (4) | 0.3771 (2) | 0.07412 (5) | 0.0266 (4) | |
| H5 | 0.4057 | 0.4049 | 0.0711 | 0.032* | |
| C6 | 0.0717 (5) | 0.5319 (3) | 0.08045 (6) | 0.0340 (5) | |
| H6A | 0.0534 | 0.5910 | 0.0588 | 0.041* | |
| H6B | −0.1005 | 0.5037 | 0.0886 | 0.041* | |
| C7 | 0.4348 (5) | 0.0860 (3) | 0.16169 (6) | 0.0350 (5) | |
| C8 | 0.3682 (7) | −0.0008 (3) | 0.19102 (6) | 0.0521 (7) | |
| H8 | 0.2354 | −0.0778 | 0.1902 | 0.062* | |
| C9 | 0.5004 (8) | 0.0274 (4) | 0.22159 (7) | 0.0629 (9) | |
| H9 | 0.4563 | −0.0297 | 0.2416 | 0.076* | |
| C10 | 0.6952 (6) | 0.1392 (4) | 0.22221 (6) | 0.0515 (7) | |
| C11 | 0.7581 (8) | 0.2284 (5) | 0.19380 (7) | 0.0651 (9) | |
| H11 | 0.8884 | 0.3069 | 0.1950 | 0.078* | |
| C12 | 0.6266 (7) | 0.2019 (4) | 0.16305 (7) | 0.0596 (9) | |
| H12 | 0.6684 | 0.2623 | 0.1434 | 0.072* | |
| C13 | 0.0993 (6) | 0.6211 (3) | 0.14011 (6) | 0.0431 (6) | |
| H13A | 0.2266 | 0.6673 | 0.1558 | 0.052* | |
| H13B | 0.0799 | 0.5059 | 0.1458 | 0.052* | |
| C14 | −0.1538 (7) | 0.7057 (5) | 0.14554 (9) | 0.0696 (10) | |
| H14A | −0.1984 | 0.7024 | 0.1697 | 0.104* | |
| H14B | −0.2858 | 0.6514 | 0.1323 | 0.104* | |
| H14C | −0.1400 | 0.8177 | 0.1381 | 0.104* | |
| O1W | 0.7487 (4) | 0.8396 (2) | 0.01513 (5) | 0.0579 (6) | |
| H1WA | 0.6231 | 0.8390 | 0.0309 | 0.087* | |
| H1WB | 0.7808 | 0.7339 | 0.0114 | 0.087* |
| O1 | 0.0504 (10) | 0.0340 (8) | 0.0232 (7) | −0.0048 (8) | −0.0058 (7) | 0.0061 (6) |
| O2 | 0.0589 (11) | 0.0259 (8) | 0.0391 (9) | 0.0043 (8) | 0.0131 (8) | 0.0045 (7) |
| O3 | 0.0378 (8) | 0.0389 (8) | 0.0226 (7) | −0.0109 (7) | 0.0029 (6) | −0.0054 (6) |
| O4 | 0.0266 (8) | 0.0428 (9) | 0.0326 (8) | −0.0055 (7) | −0.0060 (7) | 0.0056 (7) |
| O5 | 0.0428 (9) | 0.0267 (7) | 0.0205 (6) | 0.0025 (7) | −0.0005 (7) | 0.0016 (6) |
| O6 | 0.0548 (11) | 0.0289 (8) | 0.0326 (8) | −0.0085 (8) | 0.0020 (8) | −0.0043 (7) |
| O11 | 0.101 (2) | 0.158 (3) | 0.0708 (18) | −0.019 (3) | −0.0407 (17) | −0.029 (2) |
| O12 | 0.211 (4) | 0.120 (2) | 0.0396 (12) | −0.013 (3) | −0.0491 (19) | 0.0032 (15) |
| N1 | 0.104 (3) | 0.082 (2) | 0.0393 (14) | 0.021 (2) | −0.0273 (16) | −0.0178 (14) |
| C1 | 0.0346 (11) | 0.0263 (10) | 0.0247 (9) | −0.0019 (9) | −0.0023 (9) | 0.0051 (8) |
| C2 | 0.0335 (11) | 0.0256 (9) | 0.0258 (9) | −0.0022 (9) | 0.0035 (9) | 0.0010 (8) |
| C3 | 0.0283 (10) | 0.0289 (10) | 0.0199 (8) | −0.0053 (9) | 0.0013 (8) | −0.0012 (8) |
| C4 | 0.0275 (10) | 0.0287 (10) | 0.0200 (9) | −0.0053 (8) | −0.0007 (8) | 0.0044 (8) |
| C5 | 0.0305 (11) | 0.0259 (9) | 0.0234 (9) | −0.0055 (9) | −0.0031 (8) | 0.0034 (8) |
| C6 | 0.0435 (13) | 0.0289 (10) | 0.0296 (10) | 0.0001 (10) | −0.0060 (9) | 0.0001 (9) |
| C7 | 0.0494 (14) | 0.0309 (11) | 0.0248 (10) | 0.0063 (10) | −0.0055 (10) | −0.0004 (9) |
| C8 | 0.085 (2) | 0.0448 (15) | 0.0267 (11) | −0.0106 (15) | −0.0050 (13) | 0.0029 (10) |
| C9 | 0.109 (3) | 0.0573 (17) | 0.0229 (11) | −0.002 (2) | −0.0065 (15) | 0.0044 (12) |
| C10 | 0.071 (2) | 0.0533 (16) | 0.0296 (12) | 0.0133 (16) | −0.0161 (13) | −0.0103 (12) |
| C11 | 0.074 (2) | 0.079 (2) | 0.0422 (15) | −0.024 (2) | −0.0151 (15) | −0.0040 (15) |
| C12 | 0.076 (2) | 0.069 (2) | 0.0341 (13) | −0.0261 (18) | −0.0139 (14) | 0.0098 (13) |
| C13 | 0.0567 (16) | 0.0445 (14) | 0.0282 (11) | −0.0012 (13) | 0.0004 (11) | −0.0034 (11) |
| C14 | 0.0544 (19) | 0.097 (3) | 0.0570 (18) | 0.0062 (19) | 0.0048 (15) | −0.0203 (18) |
| O1W | 0.0500 (11) | 0.0482 (11) | 0.0753 (13) | −0.0145 (10) | 0.0207 (11) | −0.0187 (10) |
| O1—C1 | 1.408 (2) | C5—H5 | 0.9800 |
| O1—C7 | 1.375 (3) | C5—C6 | 1.504 (3) |
| O2—H2B | 0.8200 | C6—H6A | 0.9700 |
| O2—C2 | 1.420 (3) | C6—H6B | 0.9700 |
| O3—H3B | 0.8201 | C7—C8 | 1.379 (3) |
| O3—C3 | 1.423 (2) | C7—C12 | 1.370 (4) |
| O4—H4B | 0.8199 | C8—H8 | 0.9300 |
| O4—C4 | 1.424 (3) | C8—C9 | 1.382 (4) |
| O5—C1 | 1.408 (3) | C9—H9 | 0.9300 |
| O5—C5 | 1.438 (2) | C9—C10 | 1.358 (5) |
| O6—C6 | 1.421 (3) | C10—C11 | 1.355 (4) |
| O6—C13 | 1.434 (3) | C11—H11 | 0.9300 |
| O11—N1 | 1.207 (5) | C11—C12 | 1.384 (4) |
| O12—N1 | 1.212 (4) | C12—H12 | 0.9300 |
| N1—C10 | 1.469 (4) | C13—H13A | 0.9700 |
| C1—H1 | 0.9800 | C13—H13B | 0.9700 |
| C1—C2 | 1.520 (3) | C13—C14 | 1.493 (4) |
| C2—H2A | 0.9800 | C14—H14A | 0.9600 |
| C2—C3 | 1.521 (3) | C14—H14B | 0.9600 |
| C3—H3A | 0.9800 | C14—H14C | 0.9600 |
| C3—C4 | 1.526 (3) | O1W—H1WA | 0.8898 |
| C4—H4A | 0.9800 | O1W—H1WB | 0.8902 |
| C4—C5 | 1.520 (3) | ||
| C7—O1—C1 | 119.10 (18) | C6—C5—H5 | 108.9 |
| C2—O2—H2B | 109.5 | O6—C6—C5 | 112.37 (18) |
| C3—O3—H3B | 109.5 | O6—C6—H6A | 109.1 |
| C4—O4—H4B | 109.4 | O6—C6—H6B | 109.1 |
| C1—O5—C5 | 111.77 (15) | C5—C6—H6A | 109.1 |
| C6—O6—C13 | 115.74 (19) | C5—C6—H6B | 109.1 |
| O11—N1—O12 | 123.3 (3) | H6A—C6—H6B | 107.9 |
| O11—N1—C10 | 119.0 (3) | O1—C7—C8 | 114.2 (2) |
| O12—N1—C10 | 117.7 (4) | C12—C7—O1 | 125.6 (2) |
| O1—C1—H1 | 110.5 | C12—C7—C8 | 120.2 (2) |
| O1—C1—C2 | 107.33 (16) | C7—C8—H8 | 120.3 |
| O5—C1—O1 | 106.40 (16) | C7—C8—C9 | 119.5 (3) |
| O5—C1—H1 | 110.5 | C9—C8—H8 | 120.3 |
| O5—C1—C2 | 111.35 (17) | C8—C9—H9 | 120.2 |
| C2—C1—H1 | 110.5 | C10—C9—C8 | 119.5 (3) |
| O2—C2—C1 | 109.70 (18) | C10—C9—H9 | 120.2 |
| O2—C2—H2A | 110.3 | C9—C10—N1 | 118.8 (3) |
| O2—C2—C3 | 107.99 (16) | C11—C10—N1 | 119.6 (3) |
| C1—C2—H2A | 110.3 | C11—C10—C9 | 121.6 (3) |
| C1—C2—C3 | 108.08 (16) | C10—C11—H11 | 120.3 |
| C3—C2—H2A | 110.3 | C10—C11—C12 | 119.4 (3) |
| O3—C3—C2 | 113.03 (16) | C12—C11—H11 | 120.3 |
| O3—C3—H3A | 106.8 | C7—C12—C11 | 119.7 (3) |
| O3—C3—C4 | 111.82 (17) | C7—C12—H12 | 120.1 |
| C2—C3—H3A | 106.8 | C11—C12—H12 | 120.1 |
| C2—C3—C4 | 111.25 (16) | O6—C13—H13A | 109.0 |
| C4—C3—H3A | 106.8 | O6—C13—H13B | 109.0 |
| O4—C4—C3 | 108.80 (17) | O6—C13—C14 | 112.9 (2) |
| O4—C4—H4A | 109.0 | H13A—C13—H13B | 107.8 |
| O4—C4—C5 | 110.55 (17) | C14—C13—H13A | 109.0 |
| C3—C4—H4A | 109.0 | C14—C13—H13B | 109.0 |
| C5—C4—C3 | 110.47 (17) | C13—C14—H14A | 109.5 |
| C5—C4—H4A | 109.0 | C13—C14—H14B | 109.5 |
| O5—C5—C4 | 110.93 (16) | C13—C14—H14C | 109.5 |
| O5—C5—H5 | 108.9 | H14A—C14—H14B | 109.5 |
| O5—C5—C6 | 107.41 (17) | H14A—C14—H14C | 109.5 |
| C4—C5—H5 | 108.9 | H14B—C14—H14C | 109.5 |
| C6—C5—C4 | 111.64 (17) | H1WA—O1W—H1WB | 104.0 |
| O1—C1—C2—O2 | −67.1 (2) | C1—O5—C5—C6 | −177.75 (17) |
| O1—C1—C2—C3 | 175.37 (17) | C1—C2—C3—O3 | 179.94 (18) |
| O1—C7—C8—C9 | 177.4 (3) | C1—C2—C3—C4 | −53.3 (2) |
| O1—C7—C12—C11 | −177.0 (3) | C2—C3—C4—O4 | −70.0 (2) |
| O2—C2—C3—O3 | 61.3 (2) | C2—C3—C4—C5 | 51.5 (2) |
| O2—C2—C3—C4 | −171.91 (17) | C3—C4—C5—O5 | −53.3 (2) |
| O3—C3—C4—O4 | 57.4 (2) | C3—C4—C5—C6 | −173.06 (17) |
| O3—C3—C4—C5 | 178.97 (16) | C4—C5—C6—O6 | −166.46 (18) |
| O4—C4—C5—O5 | 67.2 (2) | C5—O5—C1—O1 | 179.69 (16) |
| O4—C4—C5—C6 | −52.6 (2) | C5—O5—C1—C2 | −63.7 (2) |
| O5—C1—C2—O2 | 176.81 (16) | C6—O6—C13—C14 | −77.1 (3) |
| O5—C1—C2—C3 | 59.3 (2) | C7—O1—C1—O5 | −79.8 (2) |
| O5—C5—C6—O6 | 71.7 (2) | C7—O1—C1—C2 | 160.93 (19) |
| O11—N1—C10—C9 | 179.0 (4) | C7—C8—C9—C10 | −0.5 (5) |
| O11—N1—C10—C11 | −2.0 (5) | C8—C7—C12—C11 | 1.6 (5) |
| O12—N1—C10—C9 | −2.8 (5) | C8—C9—C10—N1 | −178.7 (3) |
| O12—N1—C10—C11 | 176.2 (4) | C8—C9—C10—C11 | 2.3 (5) |
| N1—C10—C11—C12 | 178.9 (3) | C9—C10—C11—C12 | −2.1 (5) |
| C1—O1—C7—C8 | 176.3 (2) | C10—C11—C12—C7 | 0.1 (6) |
| C1—O1—C7—C12 | −4.9 (4) | C12—C7—C8—C9 | −1.4 (5) |
| C1—O5—C5—C4 | 60.0 (2) | C13—O6—C6—C5 | −96.4 (2) |
| H··· | ||||
| O2—H2 | 0.82 | 1.85 | 2.670 (2) | 179 |
| O3—H3 | 0.82 | 1.91 | 2.711 (2) | 167 |
| O4—H4 | 0.82 | 1.97 | 2.785 (2) | 170 |
| O1 | 0.89 | 1.90 | 2.776 (3) | 166 |
| O1 | 0.89 | 2.39 | 3.208 (2) | 154 |
| C3—H3 | 0.98 | 2.35 | 3.283 (3) | 158 |
| C13—H13 | 0.97 | 2.55 | 3.167 (3) | 121 |
| C13—H13 | 0.97 | 2.53 | 3.173 (3) | 123 |