Supporting information
Crystallographic Information File (CIF) https://doi.org/10.1107/S0108270103005493/fa1009sup1.cif | |
Structure factor file (CIF format) https://doi.org/10.1107/S0108270103005493/fa1009Isup2.hkl |
CCDC reference: 214152
The starting material (1S,8R,8aS)-5,5-dimethyl-1-tridecyl-3- oxotetrahydro[1,3]oxazolo[3,4-c][1,3]oxazin-8-yl benzoate, (II), was prepared from Garners aldehyde (Garner et al., 1988; Campbell et al., 1998). In brief, Garner's aldehyde is elongated by a Wittig reaction with a long-chain phosphorous ylide followed by an intramolecular iodolactonization (Ageno et al., 1995) of the Z-olefin. Molecular rearrangement induced by silver acetate in acetic acid followed by exchange of benzoyl for acetyl protection with inversion of configuration at C8 afforded (II) (Sawatzki, 2003). Glassware was flame dried under an argon atmosphere and allowed to cool. Compound (II) (207.1 mg, 437.3 µmol) was dissolved in methanol and a catalytic amount of sodium hydroxide in methanol (1 M) added. Stirring was continued for 18 h and the solvent evaporated under reduced pressure. The residue was dissolved in THF/0.5 M HCl (1:1) and stirred at 353 K for 18 h under reflux. After cooling to ambient temperature, the solution was neutralized with saturated sodium hydrogencarbonate solution and concentrated under reduced pressure. The residue was extracted with chloroform and the organic phase dried over sodium sulfate. After evaporation of the solvent, the residue obtained was purified by column chromatography on silica gel with chloroform/methanol (10:1) as eluant (yield: 122.9 mg, 85.3%). The purification afforded a few colourless crystals suitable for X-ray analysis. TLC: 10:1 chloroform-methanol, RF = 0.41; m.p.: 365 K (sharp); αD = −16.1° (c = 0.26 in MeOH/CHCl3 1:1); 1H NMR (500 MHz, CD3OD/CDCl3 1:1): δ 0.86 (t, J = 7 Hz, 3H; CH3), 1.25 (m, 16H; CH2), 1.36 (m, 4H; CH2), 1.56 (m, 2H; CH2), 1.69 (m, 1H; CH2), 1.97 (m, 1H; CH2), 3.50 (td, J = 5.7 Hz, J = 11.5 Hz, 1H; CH2OH), 3.54 (td, J = 5.7 Hz, J = 11.5 Hz, 1H; CH2OH), 3.72 (dt, J = 2.2 Hz, J = 5.7 Hz, 1H; H-5), 3.81 (dd, J = 2.2 Hz, J = 7.8 Hz, 1H; H-4), 4.63 (ddd, J = 3.8 Hz, J = 7.8 Hz, J = 10.1 Hz, 1H; H-1'); 13C NMR (100 MHz, CD3OD/CDCl3 1:1): δ 14.9 (CH3), 23.9–33.2 (CH2), 58.1 (C-5), 65.1 (CH2OH), 70.1 (C-4), 81.9 (C-1'), 162.8 (C-2); FAB-MS (3-nitrobenzoic acid): m/z = 330 (M + H)+; IR: 1697.7 cm−1.
Friedel pairs were merged prior to the final refinement. The absolute configuration of (I) was assigned to agree with the chirality established by the synthesis. The positions of the amide H atom and the hydroxy H atoms were determined from a difference Fourier map and the coordinates were refined freely, with isotropic displacement parameters constrained to Uiso(H) = 1.2Ueq (N) and 1.5Ueq (O). All remaining H atoms were treated as riding, with C—H = 0.98–1.00 Å and Uiso(H) = 1.2Ueq (CH, CH2) and 1.5Ueq (CH3).
Data collection: COLLECT (Nonius, 1997-2000); cell refinement: DENZO–SMN (Otwinowski & Minor, 1997); data reduction: DENZO–SMN; program(s) used to solve structure: SIR97 (Altomare et al., 1999); program(s) used to refine structure: SHELXL97 (Sheldrick, 1997); molecular graphics: SHELXTL-NT (Sheldrick, 2001); software used to prepare material for publication: SHELXL97.
C18H35NO4 | F(000) = 364 |
Mr = 329.47 | Dx = 1.203 Mg m−3 |
Monoclinic, P21 | Mo Kα radiation, λ = 0.71073 Å |
a = 5.4040 (2) Å | Cell parameters from 9695 reflections |
b = 7.6062 (4) Å | θ = 2–28.3° |
c = 22.1898 (11) Å | µ = 0.08 mm−1 |
β = 94.208 (3)° | T = 123 K |
V = 909.63 (7) Å3 | Plates, colourless |
Z = 2 | 0.50 × 0.40 × 0.02 mm |
Nonius KappaCCD diffractometer | 2037 reflections with I > 2σ(I) |
Radiation source: fine-focus sealed tube | Rint = 0.043 |
Graphite monochromator | θmax = 28.3°, θmin = 3.3° |
rotation in ϕ and ω (1°) scans | h = −7→7 |
10314 measured reflections | k = −10→10 |
2337 independent reflections | l = −28→29 |
Refinement on F2 | Secondary atom site location: difference Fourier map |
Least-squares matrix: full | Hydrogen site location: inferred from neighbouring sites |
R[F2 > 2σ(F2)] = 0.034 | H atoms treated by a mixture of independent and constrained refinement |
wR(F2) = 0.084 | w = 1/[σ2(Fo2) + (0.0547P)2] where P = (Fo2 + 2Fc2)/3 |
S = 1.01 | (Δ/σ)max < 0.001 |
2337 reflections | Δρmax = 0.22 e Å−3 |
217 parameters | Δρmin = −0.21 e Å−3 |
1 restraint | Absolute structure: Flack (1983), 2076 Friedel pairs |
Primary atom site location: structure-invariant direct methods | Absolute structure parameter: −0.6 (10) |
C18H35NO4 | V = 909.63 (7) Å3 |
Mr = 329.47 | Z = 2 |
Monoclinic, P21 | Mo Kα radiation |
a = 5.4040 (2) Å | µ = 0.08 mm−1 |
b = 7.6062 (4) Å | T = 123 K |
c = 22.1898 (11) Å | 0.50 × 0.40 × 0.02 mm |
β = 94.208 (3)° |
Nonius KappaCCD diffractometer | 2037 reflections with I > 2σ(I) |
10314 measured reflections | Rint = 0.043 |
2337 independent reflections |
R[F2 > 2σ(F2)] = 0.034 | H atoms treated by a mixture of independent and constrained refinement |
wR(F2) = 0.084 | Δρmax = 0.22 e Å−3 |
S = 1.01 | Δρmin = −0.21 e Å−3 |
2337 reflections | Absolute structure: Flack (1983), 2076 Friedel pairs |
217 parameters | Absolute structure parameter: −0.6 (10) |
1 restraint |
Experimental. dx = 40 mm, 150 sec./°., 1 °., 4 sets., 486 frames, mos.= 0.855 (2) °. |
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 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 > σ(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. The data are merged (use of MERG 3). Not merging the friedel pairs (2076) achive a flack parameter (x = 0.0 (8)), which corresponds to the known absoltue configuration. |
x | y | z | Uiso*/Ueq | ||
N1 | 1.3064 (3) | 0.6374 (2) | 0.91674 (6) | 0.0195 (3) | |
H1N | 1.401 (4) | 0.628 (3) | 0.9488 (9) | 0.023* | |
C2 | 1.1842 (3) | 0.4973 (2) | 0.89448 (7) | 0.0190 (3) | |
O2 | 1.1740 (2) | 0.35029 (18) | 0.91611 (5) | 0.0260 (3) | |
O3 | 1.0645 (2) | 0.53724 (17) | 0.84029 (5) | 0.0211 (3) | |
C4 | 1.1393 (3) | 0.7131 (2) | 0.82316 (7) | 0.0169 (3) | |
H4 | 1.2781 | 0.7009 | 0.7960 | 0.020* | |
C5 | 1.2460 (3) | 0.7976 (2) | 0.88307 (6) | 0.0161 (3) | |
H5 | 1.4038 | 0.8599 | 0.8755 | 0.019* | |
C6 | 1.0807 (3) | 0.9224 (2) | 0.91563 (7) | 0.0176 (3) | |
H6 | 1.0399 | 1.0262 | 0.8891 | 0.021* | |
O6 | 0.8561 (2) | 0.83364 (18) | 0.92720 (5) | 0.0226 (3) | |
H6O | 0.761 (4) | 0.914 (3) | 0.9416 (9) | 0.034* | |
C7 | 1.2094 (3) | 0.9861 (2) | 0.97516 (7) | 0.0187 (3) | |
H7A | 1.0965 | 1.0655 | 0.9955 | 0.022* | |
H7B | 1.2464 | 0.8841 | 1.0020 | 0.022* | |
O7 | 1.4355 (2) | 1.07753 (18) | 0.96579 (5) | 0.0210 (3) | |
H7O | 1.388 (4) | 1.168 (4) | 0.9540 (10) | 0.032* | |
C8 | 0.9229 (3) | 0.8002 (2) | 0.78716 (7) | 0.0193 (3) | |
H8A | 0.9629 | 0.9253 | 0.7803 | 0.023* | |
H8B | 0.7742 | 0.7957 | 0.8106 | 0.023* | |
C9 | 0.8664 (3) | 0.7090 (3) | 0.72625 (7) | 0.0214 (4) | |
H9A | 0.8236 | 0.5846 | 0.7336 | 0.026* | |
H9B | 1.0179 | 0.7103 | 0.7037 | 0.026* | |
C10 | 0.6542 (3) | 0.7940 (3) | 0.68708 (7) | 0.0212 (4) | |
H10A | 0.4996 | 0.7848 | 0.7082 | 0.025* | |
H10B | 0.6911 | 0.9204 | 0.6821 | 0.025* | |
C11 | 0.6125 (3) | 0.7097 (3) | 0.62486 (7) | 0.0226 (4) | |
H11A | 0.5771 | 0.5831 | 0.6299 | 0.027* | |
H11B | 0.7669 | 0.7197 | 0.6037 | 0.027* | |
C12 | 0.3997 (3) | 0.7928 (3) | 0.58562 (7) | 0.0230 (4) | |
H12A | 0.4327 | 0.9201 | 0.5815 | 0.028* | |
H12B | 0.2443 | 0.7800 | 0.6062 | 0.028* | |
C13 | 0.3628 (3) | 0.7114 (3) | 0.52266 (7) | 0.0244 (4) | |
H13A | 0.5175 | 0.7255 | 0.5019 | 0.029* | |
H13B | 0.3318 | 0.5838 | 0.5268 | 0.029* | |
C14 | 0.1484 (3) | 0.7928 (3) | 0.48369 (7) | 0.0241 (4) | |
H14A | 0.1790 | 0.9204 | 0.4796 | 0.029* | |
H14B | −0.0065 | 0.7783 | 0.5044 | 0.029* | |
C15 | 0.1129 (3) | 0.7114 (3) | 0.42079 (7) | 0.0243 (4) | |
H15A | 0.2672 | 0.7275 | 0.4000 | 0.029* | |
H15B | 0.0851 | 0.5835 | 0.4250 | 0.029* | |
C16 | −0.1033 (3) | 0.7898 (3) | 0.38166 (7) | 0.0236 (4) | |
H16A | −0.0742 | 0.9173 | 0.3767 | 0.028* | |
H16B | −0.2574 | 0.7756 | 0.4027 | 0.028* | |
C17 | −0.1399 (3) | 0.7051 (3) | 0.31923 (7) | 0.0230 (4) | |
H17A | 0.0136 | 0.7207 | 0.2981 | 0.028* | |
H17B | −0.1662 | 0.5773 | 0.3243 | 0.028* | |
C18 | −0.3579 (3) | 0.7803 (3) | 0.27979 (7) | 0.0219 (4) | |
H18A | −0.3284 | 0.9071 | 0.2731 | 0.026* | |
H18B | −0.5107 | 0.7692 | 0.3015 | 0.026* | |
C19 | −0.3981 (3) | 0.6887 (2) | 0.21858 (7) | 0.0211 (4) | |
H19A | −0.2469 | 0.7022 | 0.1964 | 0.025* | |
H19B | −0.4242 | 0.5616 | 0.2252 | 0.025* | |
C20 | −0.6198 (3) | 0.7623 (3) | 0.18013 (7) | 0.0250 (4) | |
H20A | −0.6376 | 0.6996 | 0.1415 | 0.038* | |
H20B | −0.5935 | 0.8877 | 0.1727 | 0.038* | |
H20C | −0.7708 | 0.7469 | 0.2015 | 0.038* |
U11 | U22 | U33 | U12 | U13 | U23 | |
N1 | 0.0246 (7) | 0.0148 (7) | 0.0180 (6) | 0.0020 (6) | −0.0059 (6) | 0.0017 (6) |
C2 | 0.0203 (7) | 0.0176 (8) | 0.0190 (7) | 0.0038 (6) | 0.0013 (6) | −0.0001 (6) |
O2 | 0.0326 (6) | 0.0159 (6) | 0.0289 (6) | 0.0002 (5) | −0.0010 (5) | 0.0037 (5) |
O3 | 0.0255 (6) | 0.0150 (6) | 0.0218 (6) | −0.0032 (5) | −0.0049 (4) | 0.0002 (5) |
C4 | 0.0175 (7) | 0.0169 (8) | 0.0160 (7) | −0.0031 (6) | −0.0019 (6) | 0.0008 (6) |
C5 | 0.0168 (7) | 0.0142 (8) | 0.0165 (7) | −0.0020 (6) | −0.0034 (5) | 0.0021 (6) |
C6 | 0.0172 (7) | 0.0165 (8) | 0.0185 (7) | −0.0028 (6) | −0.0031 (6) | 0.0020 (6) |
O6 | 0.0193 (5) | 0.0205 (7) | 0.0281 (6) | −0.0043 (5) | 0.0030 (5) | −0.0046 (5) |
C7 | 0.0214 (7) | 0.0154 (8) | 0.0187 (7) | −0.0015 (6) | −0.0020 (6) | −0.0003 (6) |
O7 | 0.0218 (6) | 0.0161 (6) | 0.0240 (6) | −0.0028 (5) | −0.0057 (4) | 0.0015 (5) |
C8 | 0.0209 (7) | 0.0187 (9) | 0.0173 (7) | −0.0013 (7) | −0.0041 (6) | −0.0004 (7) |
C9 | 0.0212 (7) | 0.0243 (9) | 0.0180 (7) | −0.0001 (7) | −0.0042 (6) | −0.0010 (7) |
C10 | 0.0203 (7) | 0.0247 (10) | 0.0179 (7) | −0.0007 (7) | −0.0040 (6) | −0.0008 (7) |
C11 | 0.0225 (8) | 0.0289 (10) | 0.0156 (7) | −0.0005 (7) | −0.0039 (6) | 0.0006 (7) |
C12 | 0.0219 (7) | 0.0284 (10) | 0.0176 (7) | −0.0003 (7) | −0.0047 (6) | −0.0007 (7) |
C13 | 0.0233 (8) | 0.0308 (10) | 0.0184 (7) | −0.0004 (8) | −0.0044 (6) | 0.0001 (7) |
C14 | 0.0221 (8) | 0.0313 (10) | 0.0182 (7) | 0.0001 (7) | −0.0037 (6) | −0.0008 (7) |
C15 | 0.0216 (8) | 0.0314 (11) | 0.0190 (7) | 0.0009 (8) | −0.0044 (6) | 0.0011 (7) |
C16 | 0.0212 (7) | 0.0293 (10) | 0.0196 (7) | 0.0008 (7) | −0.0031 (6) | 0.0005 (7) |
C17 | 0.0205 (8) | 0.0291 (10) | 0.0187 (7) | 0.0018 (7) | −0.0030 (6) | 0.0010 (7) |
C18 | 0.0201 (7) | 0.0239 (10) | 0.0209 (7) | 0.0024 (7) | −0.0025 (6) | −0.0007 (7) |
C19 | 0.0200 (7) | 0.0241 (10) | 0.0187 (7) | 0.0005 (7) | −0.0014 (6) | 0.0008 (7) |
C20 | 0.0206 (8) | 0.0328 (11) | 0.0212 (7) | 0.0022 (7) | −0.0023 (6) | 0.0001 (8) |
N1—C2 | 1.330 (2) | C11—H11A | 0.9900 |
N1—C5 | 1.454 (2) | C11—H11B | 0.9900 |
N1—H1N | 0.85 (2) | C12—C13 | 1.528 (2) |
C2—O2 | 1.219 (2) | C12—H12A | 0.9900 |
C2—O3 | 1.3575 (19) | C12—H12B | 0.9900 |
O3—C4 | 1.456 (2) | C13—C14 | 1.526 (2) |
C4—C8 | 1.519 (2) | C13—H13A | 0.9900 |
C4—C5 | 1.549 (2) | C13—H13B | 0.9900 |
C4—H4 | 1.0000 | C14—C15 | 1.526 (2) |
C5—C6 | 1.522 (2) | C14—H14A | 0.9900 |
C5—H5 | 1.0000 | C14—H14B | 0.9900 |
C6—O6 | 1.4283 (19) | C15—C16 | 1.525 (2) |
C6—C7 | 1.526 (2) | C15—H15A | 0.9900 |
C6—H6 | 1.0000 | C15—H15B | 0.9900 |
O6—H6O | 0.88 (2) | C16—C17 | 1.528 (2) |
C7—O7 | 1.434 (2) | C16—H16A | 0.9900 |
C7—H7A | 0.9900 | C16—H16B | 0.9900 |
C7—H7B | 0.9900 | C17—C18 | 1.526 (2) |
O7—H7O | 0.77 (3) | C17—H17A | 0.9900 |
C8—C9 | 1.530 (2) | C17—H17B | 0.9900 |
C8—H8A | 0.9900 | C18—C19 | 1.528 (2) |
C8—H8B | 0.9900 | C18—H18A | 0.9900 |
C9—C10 | 1.530 (2) | C18—H18B | 0.9900 |
C9—H9A | 0.9900 | C19—C20 | 1.525 (2) |
C9—H9B | 0.9900 | C19—H19A | 0.9900 |
C10—C11 | 1.524 (2) | C19—H19B | 0.9900 |
C10—H10A | 0.9900 | C20—H20A | 0.9800 |
C10—H10B | 0.9900 | C20—H20B | 0.9800 |
C11—C12 | 1.527 (2) | C20—H20C | 0.9800 |
C2—N1—C5 | 113.21 (13) | H11A—C11—H11B | 107.7 |
C2—N1—H1N | 119.8 (16) | C11—C12—C13 | 113.29 (15) |
C5—N1—H1N | 126.9 (16) | C11—C12—H12A | 108.9 |
O2—C2—N1 | 128.62 (15) | C13—C12—H12A | 108.9 |
O2—C2—O3 | 121.44 (15) | C11—C12—H12B | 108.9 |
N1—C2—O3 | 109.94 (14) | C13—C12—H12B | 108.9 |
C2—O3—C4 | 108.28 (12) | H12A—C12—H12B | 107.7 |
O3—C4—C8 | 108.67 (13) | C14—C13—C12 | 113.33 (15) |
O3—C4—C5 | 104.48 (11) | C14—C13—H13A | 108.9 |
C8—C4—C5 | 119.62 (14) | C12—C13—H13A | 108.9 |
O3—C4—H4 | 107.9 | C14—C13—H13B | 108.9 |
C8—C4—H4 | 107.9 | C12—C13—H13B | 108.9 |
C5—C4—H4 | 107.9 | H13A—C13—H13B | 107.7 |
N1—C5—C6 | 113.34 (12) | C13—C14—C15 | 113.13 (15) |
N1—C5—C4 | 98.57 (13) | C13—C14—H14A | 109.0 |
C6—C5—C4 | 118.13 (12) | C15—C14—H14A | 109.0 |
N1—C5—H5 | 108.7 | C13—C14—H14B | 109.0 |
C6—C5—H5 | 108.7 | C15—C14—H14B | 109.0 |
C4—C5—H5 | 108.7 | H14A—C14—H14B | 107.8 |
O6—C6—C5 | 109.07 (13) | C16—C15—C14 | 113.67 (15) |
O6—C6—C7 | 109.51 (12) | C16—C15—H15A | 108.8 |
C5—C6—C7 | 111.29 (12) | C14—C15—H15A | 108.8 |
O6—C6—H6 | 109.0 | C16—C15—H15B | 108.8 |
C5—C6—H6 | 109.0 | C14—C15—H15B | 108.8 |
C7—C6—H6 | 109.0 | H15A—C15—H15B | 107.7 |
C6—O6—H6O | 105.3 (16) | C15—C16—C17 | 113.22 (15) |
O7—C7—C6 | 111.56 (12) | C15—C16—H16A | 108.9 |
O7—C7—H7A | 109.3 | C17—C16—H16A | 108.9 |
C6—C7—H7A | 109.3 | C15—C16—H16B | 108.9 |
O7—C7—H7B | 109.3 | C17—C16—H16B | 108.9 |
C6—C7—H7B | 109.3 | H16A—C16—H16B | 107.7 |
H7A—C7—H7B | 108.0 | C18—C17—C16 | 113.89 (15) |
C7—O7—H7O | 102.4 (16) | C18—C17—H17A | 108.8 |
C4—C8—C9 | 111.28 (14) | C16—C17—H17A | 108.8 |
C4—C8—H8A | 109.4 | C18—C17—H17B | 108.8 |
C9—C8—H8A | 109.4 | C16—C17—H17B | 108.8 |
C4—C8—H8B | 109.4 | H17A—C17—H17B | 107.7 |
C9—C8—H8B | 109.4 | C17—C18—C19 | 113.09 (14) |
H8A—C8—H8B | 108.0 | C17—C18—H18A | 109.0 |
C8—C9—C10 | 113.76 (15) | C19—C18—H18A | 109.0 |
C8—C9—H9A | 108.8 | C17—C18—H18B | 109.0 |
C10—C9—H9A | 108.8 | C19—C18—H18B | 109.0 |
C8—C9—H9B | 108.8 | H18A—C18—H18B | 107.8 |
C10—C9—H9B | 108.8 | C20—C19—C18 | 112.62 (14) |
H9A—C9—H9B | 107.7 | C20—C19—H19A | 109.1 |
C11—C10—C9 | 113.08 (14) | C18—C19—H19A | 109.1 |
C11—C10—H10A | 109.0 | C20—C19—H19B | 109.1 |
C9—C10—H10A | 109.0 | C18—C19—H19B | 109.1 |
C11—C10—H10B | 109.0 | H19A—C19—H19B | 107.8 |
C9—C10—H10B | 109.0 | C19—C20—H20A | 109.5 |
H10A—C10—H10B | 107.8 | C19—C20—H20B | 109.5 |
C10—C11—C12 | 113.43 (15) | H20A—C20—H20B | 109.5 |
C10—C11—H11A | 108.9 | C19—C20—H20C | 109.5 |
C12—C11—H11A | 108.9 | H20A—C20—H20C | 109.5 |
C10—C11—H11B | 108.9 | H20B—C20—H20C | 109.5 |
C12—C11—H11B | 108.9 | ||
C5—N1—C2—O2 | −171.24 (16) | O6—C6—C7—O7 | −179.55 (13) |
C5—N1—C2—O3 | 9.64 (18) | C5—C6—C7—O7 | 59.78 (17) |
O2—C2—O3—C4 | −172.31 (14) | O3—C4—C8—C9 | −67.09 (16) |
N1—C2—O3—C4 | 6.88 (17) | C5—C4—C8—C9 | 173.19 (13) |
C2—O3—C4—C8 | −147.84 (12) | C4—C8—C9—C10 | −178.45 (14) |
C2—O3—C4—C5 | −19.08 (15) | C8—C9—C10—C11 | 175.90 (14) |
C2—N1—C5—C6 | 105.62 (15) | C9—C10—C11—C12 | 179.56 (14) |
C2—N1—C5—C4 | −20.13 (16) | C10—C11—C12—C13 | 178.45 (14) |
O3—C4—C5—N1 | 22.39 (14) | C11—C12—C13—C14 | 179.32 (14) |
C8—C4—C5—N1 | 144.21 (14) | C12—C13—C14—C15 | 179.81 (15) |
O3—C4—C5—C6 | −99.94 (15) | C13—C14—C15—C16 | 179.16 (15) |
C8—C4—C5—C6 | 21.9 (2) | C14—C15—C16—C17 | −178.97 (14) |
N1—C5—C6—O6 | −58.29 (15) | C15—C16—C17—C18 | 179.19 (15) |
C4—C5—C6—O6 | 56.21 (17) | C16—C17—C18—C19 | −177.59 (14) |
N1—C5—C6—C7 | 62.64 (17) | C17—C18—C19—C20 | 178.74 (15) |
C4—C5—C6—C7 | 177.14 (14) |
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1N···O7i | 0.85 (2) | 2.07 (2) | 2.9005 (17) | 167.2 (18) |
O6—H6O···O7ii | 0.88 (2) | 2.25 (2) | 3.1025 (17) | 165 (2) |
O7—H7O···O2iii | 0.77 (3) | 1.95 (3) | 2.6997 (17) | 161 (2) |
Symmetry codes: (i) −x+3, y−1/2, −z+2; (ii) x−1, y, z; (iii) x, y+1, z. |
Experimental details
Crystal data | |
Chemical formula | C18H35NO4 |
Mr | 329.47 |
Crystal system, space group | Monoclinic, P21 |
Temperature (K) | 123 |
a, b, c (Å) | 5.4040 (2), 7.6062 (4), 22.1898 (11) |
β (°) | 94.208 (3) |
V (Å3) | 909.63 (7) |
Z | 2 |
Radiation type | Mo Kα |
µ (mm−1) | 0.08 |
Crystal size (mm) | 0.50 × 0.40 × 0.02 |
Data collection | |
Diffractometer | Nonius KappaCCD diffractometer |
Absorption correction | – |
No. of measured, independent and observed [I > 2σ(I)] reflections | 10314, 2337, 2037 |
Rint | 0.043 |
(sin θ/λ)max (Å−1) | 0.666 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.034, 0.084, 1.01 |
No. of reflections | 2337 |
No. of parameters | 217 |
No. of restraints | 1 |
H-atom treatment | H atoms treated by a mixture of independent and constrained refinement |
Δρmax, Δρmin (e Å−3) | 0.22, −0.21 |
Absolute structure | Flack (1983), 2076 Friedel pairs |
Absolute structure parameter | −0.6 (10) |
Computer programs: COLLECT (Nonius, 1997-2000), DENZO–SMN (Otwinowski & Minor, 1997), DENZO–SMN, SIR97 (Altomare et al., 1999), SHELXL97 (Sheldrick, 1997), SHELXTL-NT (Sheldrick, 2001), SHELXL97.
N1—C2 | 1.330 (2) | C4—C8 | 1.519 (2) |
N1—C5 | 1.454 (2) | C4—C5 | 1.549 (2) |
C2—O3 | 1.3575 (19) | C5—C6 | 1.522 (2) |
O3—C4 | 1.456 (2) | ||
C2—N1—C5 | 113.21 (13) | C8—C4—C5 | 119.62 (14) |
N1—C2—O3 | 109.94 (14) | N1—C5—C6 | 113.34 (12) |
C2—O3—C4 | 108.28 (12) | N1—C5—C4 | 98.57 (13) |
O3—C4—C8 | 108.67 (13) | C6—C5—C4 | 118.13 (12) |
O3—C4—C5 | 104.48 (11) | C4—C8—C9 | 111.28 (14) |
C5—N1—C2—O3 | 9.64 (18) | N1—C5—C6—O6 | −58.29 (15) |
N1—C2—O3—C4 | 6.88 (17) | C4—C5—C6—C7 | 177.14 (14) |
C2—O3—C4—C5 | −19.08 (15) | O6—C6—C7—O7 | −179.55 (13) |
C2—N1—C5—C4 | −20.13 (16) | C5—C6—C7—O7 | 59.78 (17) |
O3—C4—C5—N1 | 22.39 (14) | C5—C4—C8—C9 | 173.19 (13) |
C8—C4—C5—C6 | 21.9 (2) |
D—H···A | D—H | H···A | D···A | D—H···A |
N1—H1N···O7i | 0.85 (2) | 2.07 (2) | 2.9005 (17) | 167.2 (18) |
O6—H6O···O7ii | 0.88 (2) | 2.25 (2) | 3.1025 (17) | 165 (2) |
O7—H7O···O2iii | 0.77 (3) | 1.95 (3) | 2.6997 (17) | 161 (2) |
Symmetry codes: (i) −x+3, y−1/2, −z+2; (ii) x−1, y, z; (iii) x, y+1, z. |
In the course of the synthesis of conformationally restricted sphingolipid analogues (Brodesser et al., 2003; Kolter, 2003), the precursor (II) of the title compound, (I), was prepared from Garner's aldehyde (Garner et al., 1988) according to Sawatzki (2003). Compound (I) was demonstrated to be an inhibitor of sphinganine hydroxylation and a potent mitogen in S. cerevisiae (Sawatzki, 2003). Removal of the benzoate and isopropylidene protective groups in (II) afforded (I).
The structure of (I) with the atom-numbering is shown in Fig. 1. Selected geometrical parameters are listed in Table 1. The 1,3-oxazolidin-2-one ring adopts an open envelope conformation, with atom C2 out of the plane. The intra-ring bond lengths C5—N1 and C4—O3, which are opposite each other, are similar; also the lengths of the adjacent bonds N1—C2 and O3—C2 within the ring show comparable similarity, with a maximum deviation of 0.03 Å. The intra-ring bond angles, however, are different and range from 98.57 (13) to 113.34 (12)°. The pseudo-axially arranged dihydroxyethyl and alkyl substituents at the 4- and 5- positions of the oxazolidinone ring are in a cisoid configuration. Both substituents show a distorted synperiplanar conformation, with a C8—C4—C5—C6 torsion angle of 21.9 (2)°, whereas within the dihydroxyethyl moiety, the OH groups are in a fully staggered relationship, with a O6—C6—C7—O7 torsion angle of −179.55 (13)°. The conformation of the tridecyl chain is as most often found for larger alkanes, i.e. staggered with the largest substituents at any C—C bond antiperiplanar to each other. The average C—C bond length within the chain is 1.527 (2) Å [range 1.524 (2)–1.530 (2) Å] and the average angle is 113 (2)° [range 112.6 (1)–113.9 (2)°]. These values are similar to those found in related amphiphilic lipids (Ramos Silva et al., 2000; Matos Beja et al., 2001). The zigzag tridecyl backbone shows a significant deviation from planarity, being bent towards atom C9; the deviation from the ideal torsion angle of 180° for C8—C9—C10—C11 is 4.10 (14)°. Also, the bond lengths C8—C9 and C9—C10 appear to diverge slightly from the average bond length found in the alkyl chain. A weaker second bend can be found at C16—C17—C18—C19 of the hydrocarbon chain [deviation 2.41 (14)°].
Three intermolecular hydrogen bonds of normal strength (Steiner, 2002) are present (Table 2), forming a nearly linear arrangement in the crystal. The greatest deviation from the ideal angle of 180° is 19.0 (2)° for the strongest hydrogen bond O7—H7O···O2. In the crystal structure, the molecule forms an intercalating bilayer generated by the 21 axis, with a lipophilic core and a hydrophilic surface (Fig. 2). The molecular packing is such that the hydrocarbon chains lie side by side, thereby forming alternating layers of carbon tails and oxazolidin-2-one heads. The hydrophilic heads are connected by a network of hydrogen bonds involving the two hydroxyl groups, the carbonyl group and an amide group, viz. O6—H6O···O7ii, O7—H7O···O2iii and N1—H1N···O7i (see Table 2 for symmetry codes and geometric details). The O7—H7O hydroxy group is involved in three hydrogen bonds. It acts as a hydrogen-bond acceptor and donor in the network connecting the hydrophilic heads of the bilayer. The 21 axis further relates each bilayer to its neighbours. Each bilayer is connected to the next via a hydrogen bond between the N1 amino group as donor and the O7 hydroxy group as acceptor. These hydrogen bonds join the oxazolidinone moieties of the molecules head-to-head within and also between the layers (Fig. 3).