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Acta Crystallographica Section E: Structure Reports Online logoLink to Acta Crystallographica Section E: Structure Reports Online
. 2011 May 7;67(Pt 6):o1361. doi: 10.1107/S1600536811016308

6β-Hy­droxy­eremophil-7(11)-en-8β,12-olide

Ri-Na Su a, Sha Shi a, Hai-Bo Wu a, Wen-Shu Wang a,*
PMCID: PMC3120521  PMID: 21754755

Abstract

The title eremophilenolide, C15H22O3, is a natural compound isolated from Senecio laetus Edgew. The two cis-fused six-membered rings have chair confomations and the five-membered ring has a planar envelope conformation [maximum deviation = 0.010 (1) Å]. The β-hy­droxy group participates in inter­molecular O—H⋯O hydrogen bonding, forming mol­ecular chains along the a axis.

Related literature

For related compounds extracted from Ligularia fischeri and Ligularia duciformis, see: Wang et al. (2000) and Fu et al. (2007), respectively.graphic file with name e-67-o1361-scheme1.jpg

Experimental

Crystal data

  • C15H22O3

  • M r = 250.33

  • Orthorhombic, Inline graphic

  • a = 8.0141 (16) Å

  • b = 9.969 (2) Å

  • c = 16.482 (3) Å

  • V = 1316.8 (5) Å3

  • Z = 4

  • Mo Kα radiation

  • μ = 0.09 mm−1

  • T = 293 K

  • 0.60 × 0.60 × 0.30 mm

Data collection

  • Rigaku R-AXIS RAPID IP diffractometer

  • Absorption correction: multi-scan (ABSCOR; Higashi, 1995) T min = 0.950, T max = 0.975

  • 8965 measured reflections

  • 1744 independent reflections

  • 1314 reflections with I > 2σ(I)

  • R int = 0.061

Refinement

  • R[F 2 > 2σ(F 2)] = 0.047

  • wR(F 2) = 0.107

  • S = 0.95

  • 1744 reflections

  • 168 parameters

  • H-atom parameters constrained

  • Δρmax = 0.21 e Å−3

  • Δρmin = −0.20 e Å−3

Data collection: RAPID-AUTO (Rigaku, 2000); cell refinement: RAPID-AUTO; data reduction: CrystalStructure (Rigaku/MSC, 2000); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: SHELXTL (Sheldrick, 2008); software used to prepare material for publication: SHELXL97.

Supplementary Material

Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536811016308/ld2005sup1.cif

e-67-o1361-sup1.cif (19.8KB, cif)

Structure factors: contains datablocks I. DOI: 10.1107/S1600536811016308/ld2005Isup2.hkl

e-67-o1361-Isup2.hkl (85.9KB, hkl)

Additional supplementary materials: crystallographic information; 3D view; checkCIF report

Table 1. Hydrogen-bond geometry (Å, °).

D—H⋯A D—H H⋯A DA D—H⋯A
O3—H3⋯O1i 0.82 2.18 2.931 (2) 152

Symmetry code: (i) Inline graphic.

Acknowledgments

The project was supported by the 985 Project (MUC985) Minzu University of China, and the Major Project for Young Teachers in Minzu University of China CUN10A, together with the "Programme of Introducing Talents of Discipline to Universities" (B08044), and the "Project for Scientific and Technical Achievements in Industrialization", Beijing Education Commission.

supplementary crystallographic information

Comment

Senecio laetus Edgew. grows in Guizhou province of China, and is traditionally used by the locals as medicine having effects on clearing fever and detoxifcation and relieving cough activities. As a part of our research on biological resources in the western area in China, the title compound, an eremophilenolide, was isolated. The compound was identified by NMR spectra, which were compared with the previous reports (Wang et al., 2000; Fu et al., 2007). Herewith, we present its crystal structure. The molecule consists of a fused three-ring system A/B/C(Fig.1). The rings A(C10–C6/C11)and B(C6–C3/C12–C11) are cis-fused; the hydroxy group at C12 site has the same β-orientation as the two methyl groups at C10 and C11. Rings A and B both are in chair conformations. The lactone ring has an envelope-like conformation with the atoms C1-C4 and O2 deviating from its mean plane by -0.002 (1), 0.008 (1), -0.010 (1), 0.007 (1) and -0.003 (1), respectively. The inter-molecular O—H···O hydrogen bonds apparently stabilize the crystal structure linking molecules into chains along [1 0 0].

Experimental

The air-dried whole plants of Senecio laetus (0.7 kg) were pulverized and triply extracted with MeOH (each time for 7 days) at room temperature. The extract was concentrated to give a residue (67 g), which was further separated by CC (SiO2, 200–300mesh, petroleum ether/EtOAc (20:1, 15:1, 10:1, 8:1, 5:1, 3:1, 2:1, 1:1 (v/v)) to yield 8 fractions: Fr. 1–8. Each fraction was examined by TLC and combined to afford many subfractions. Fr.5a (0.5 g) was subjected to CC (SiO2, 200–300mesh, petroleum ether/ EtOAc 10:1, 5:1 (v/v)) to provide the title compound (20 mg). 1H and 13C NMR spectral data of this compound was recorded on Bruker-AV-500 s pectrometer, using CDCl3 as solvent and Me4Si as internal standard. The stereochemistry was established by the X-ray diffraction experiment.

Refinement

The hydrogen atoms were placed in calculated positions [d(O—H) = 0.82 Å] and refined as riding with Uiso(H) = 1.2Ueq(C) or 1.5Ueq(C,O). The positions of methyl and hydroxy hydrogens were rotationally optimized. In the absence of any significant anomalous scatterers in the molecule, the absolute configuration has been arbitrarily assigned. Friedel pairs have been averaged.

Figures

Fig. 1.

Fig. 1.

View of the title molecule showing the atom-numbering scheme. Displacement ellipsoids are drawn at the 50% probability level.

Crystal data

C15H22O3 F(000) = 544
Mr = 250.33 Dx = 1.263 Mg m3
Orthorhombic, P212121 Mo Kα radiation, λ = 0.71073 Å
Hall symbol: P 2ac 2ab Cell parameters from 8965 reflections
a = 8.0141 (16) Å θ = 2.4–27.5°
b = 9.969 (2) Å µ = 0.09 mm1
c = 16.482 (3) Å T = 293 K
V = 1316.8 (5) Å3 Block, colourless
Z = 4 0.60 × 0.60 × 0.30 mm

Data collection

Rigaku R-AXIS RAPID IP diffractometer 1744 independent reflections
Radiation source: fine-focus sealed tube 1314 reflections with I > 2σ(I)
graphite Rint = 0.061
ω scans θmax = 27.5°, θmin = 2.4°
Absorption correction: multi-scan (ABSCOR; Higashi, 1995) h = 0→10
Tmin = 0.950, Tmax = 0.975 k = 0→12
8965 measured reflections l = 0→21

Refinement

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)] = 0.047 H-atom parameters constrained
wR(F2) = 0.107 w = 1/[σ2(Fo2) + (0.0635P)2] where P = (Fo2 + 2Fc2)/3
S = 0.95 (Δ/σ)max = 0.002
1744 reflections Δρmax = 0.21 e Å3
168 parameters Δρmin = −0.20 e Å3
0 restraints Extinction correction: SHELXL97 (Sheldrick, 2008), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4
Primary atom site location: structure-invariant direct methods Extinction coefficient: 0.180 (11)

Special details

Experimental. Since the two skeleton methyl groups in eremophilenolides are in biogenic β orientation, we assigned the relative stereochemistry of the title eremophilenolide, by reference to the structures of related eremophilenolides in Wang et al. (2000) and Fu et al. (2007) although the absolute configuration could not be reliably determined from anomalous dispersion effects with Mo radiation used in the experiment. Furthermore, the relative stereochemistry in the title compound was confirmed by NMR data. 13C NMR(125 MHz, CDCl3, δ, p.p.m.): 175.15(C1), 162.95(C3), 122.08(C2), 77.55(C4), 70.18(C12), 45.60(C11), 35.88(C5), 35.31(C6), 31.68(C10), 28.33(C7), 28.33(C9), 20.17(C8), 18.96(C14), 15.14(C15), 8.93(C13).
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.

Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2)

x y z Uiso*/Ueq
C1 0.1478 (3) 1.0934 (2) −0.03828 (13) 0.0498 (5)
C2 0.3268 (3) 1.0825 (2) −0.05855 (13) 0.0440 (5)
C3 0.4112 (3) 1.0805 (2) 0.01139 (12) 0.0413 (5)
C4 0.2914 (2) 1.0938 (3) 0.08081 (12) 0.0481 (6)
H4 0.3130 1.1778 0.1099 0.058*
C5 0.3057 (3) 0.9777 (3) 0.13851 (14) 0.0539 (6)
H5A 0.2681 0.8962 0.1120 0.065*
H5B 0.2354 0.9933 0.1854 0.065*
C6 0.4879 (3) 0.9612 (3) 0.16573 (12) 0.0468 (5)
H6 0.4924 0.8796 0.1989 0.056*
C7 0.5409 (3) 1.0768 (3) 0.22055 (13) 0.0549 (6)
H7A 0.4673 1.0804 0.2672 0.066*
H7B 0.5293 1.1606 0.1911 0.066*
C8 0.7215 (3) 1.0626 (3) 0.24987 (13) 0.0614 (7)
H8A 0.7529 1.1411 0.2811 0.074*
H8B 0.7314 0.9845 0.2846 0.074*
C9 0.8371 (3) 1.0479 (3) 0.17726 (13) 0.0550 (6)
H9A 0.9506 1.0361 0.1965 0.066*
H9B 0.8336 1.1297 0.1455 0.066*
C10 0.7906 (3) 0.9293 (2) 0.12286 (13) 0.0497 (6)
H10 0.8622 0.9345 0.0748 0.060*
C11 0.6069 (2) 0.9379 (2) 0.09238 (12) 0.0427 (5)
C12 0.5903 (2) 1.0574 (2) 0.03156 (12) 0.0413 (5)
H12 0.6343 1.1384 0.0576 0.050*
C13 0.3809 (3) 1.0747 (3) −0.14545 (12) 0.0561 (6)
H13A 0.4807 1.1265 −0.1528 0.084*
H13B 0.2943 1.1096 −0.1797 0.084*
H13C 0.4024 0.9829 −0.1596 0.084*
C14 0.5597 (3) 0.8095 (2) 0.04675 (15) 0.0633 (7)
H14A 0.6471 0.7864 0.0095 0.095*
H14B 0.4578 0.8239 0.0173 0.095*
H14C 0.5444 0.7377 0.0848 0.095*
C15 0.8317 (4) 0.7963 (3) 0.16557 (18) 0.0727 (8)
H15A 0.9469 0.7961 0.1815 0.109*
H15B 0.8113 0.7230 0.1291 0.109*
H15C 0.7625 0.7867 0.2128 0.109*
O1 0.0277 (2) 1.09467 (19) −0.08281 (10) 0.0629 (5)
O2 0.12877 (17) 1.09976 (19) 0.04302 (9) 0.0568 (5)
O3 0.67936 (19) 1.0359 (2) −0.04189 (9) 0.0647 (6)
H3 0.7767 1.0594 −0.0360 0.097*

Atomic displacement parameters (Å2)

U11 U22 U33 U12 U13 U23
C1 0.0432 (11) 0.0585 (13) 0.0476 (11) −0.0017 (11) −0.0011 (10) 0.0074 (12)
C2 0.0401 (10) 0.0499 (12) 0.0420 (10) −0.0017 (10) −0.0004 (9) 0.0037 (10)
C3 0.0377 (9) 0.0479 (11) 0.0383 (9) −0.0040 (10) 0.0045 (9) 0.0014 (9)
C4 0.0310 (9) 0.0733 (15) 0.0399 (10) 0.0022 (11) 0.0015 (9) 0.0018 (11)
C5 0.0352 (10) 0.0824 (17) 0.0441 (11) −0.0036 (12) 0.0082 (9) 0.0135 (12)
C6 0.0361 (10) 0.0641 (13) 0.0403 (10) −0.0009 (10) 0.0069 (9) 0.0113 (10)
C7 0.0448 (11) 0.0820 (16) 0.0378 (10) 0.0094 (13) 0.0056 (10) −0.0024 (11)
C8 0.0484 (12) 0.0904 (19) 0.0455 (11) −0.0002 (14) −0.0053 (11) −0.0075 (13)
C9 0.0384 (11) 0.0781 (16) 0.0486 (11) −0.0010 (12) −0.0044 (11) −0.0014 (12)
C10 0.0381 (11) 0.0629 (14) 0.0481 (11) 0.0058 (11) 0.0048 (10) 0.0028 (11)
C11 0.0356 (10) 0.0507 (12) 0.0418 (10) −0.0012 (9) 0.0024 (9) −0.0009 (9)
C12 0.0327 (9) 0.0556 (12) 0.0357 (9) −0.0045 (9) 0.0031 (8) 0.0033 (10)
C13 0.0574 (14) 0.0724 (15) 0.0386 (10) −0.0003 (13) 0.0000 (11) 0.0016 (11)
C14 0.0605 (14) 0.0576 (13) 0.0717 (15) −0.0026 (12) −0.0018 (14) −0.0084 (13)
C15 0.0631 (16) 0.0726 (16) 0.0825 (17) 0.0173 (14) −0.0060 (16) 0.0115 (15)
O1 0.0436 (8) 0.0838 (12) 0.0612 (9) −0.0014 (9) −0.0117 (8) 0.0080 (9)
O2 0.0333 (7) 0.0884 (12) 0.0488 (8) 0.0062 (9) 0.0030 (7) 0.0099 (9)
O3 0.0375 (8) 0.1178 (16) 0.0388 (7) −0.0027 (10) 0.0079 (7) −0.0008 (10)

Geometric parameters (Å, °)

C1—O1 1.210 (3) C8—H8B 0.9700
C1—O2 1.350 (3) C9—C10 1.530 (3)
C1—C2 1.477 (3) C9—H9A 0.9700
C2—C3 1.337 (3) C9—H9B 0.9700
C2—C13 1.499 (3) C10—C15 1.537 (3)
C3—C12 1.492 (3) C10—C11 1.557 (3)
C3—C4 1.500 (3) C10—H10 0.9800
C4—O2 1.445 (2) C11—C14 1.532 (3)
C4—C5 1.502 (3) C11—C12 1.563 (3)
C4—H4 0.9800 C12—O3 1.421 (2)
C5—C6 1.536 (3) C12—H12 0.9800
C5—H5A 0.9700 C13—H13A 0.9600
C5—H5B 0.9700 C13—H13B 0.9600
C6—C7 1.525 (4) C13—H13C 0.9600
C6—C11 1.557 (3) C14—H14A 0.9600
C6—H6 0.9800 C14—H14B 0.9600
C7—C8 1.532 (3) C14—H14C 0.9600
C7—H7A 0.9700 C15—H15A 0.9600
C7—H7B 0.9700 C15—H15B 0.9600
C8—C9 1.521 (3) C15—H15C 0.9600
C8—H8A 0.9700 O3—H3 0.8200
O1—C1—O2 120.8 (2) C8—C9—H9B 109.0
O1—C1—C2 129.5 (2) C10—C9—H9B 109.0
O2—C1—C2 109.71 (19) H9A—C9—H9B 107.8
C3—C2—C1 107.30 (19) C9—C10—C15 110.24 (19)
C3—C2—C13 132.62 (19) C9—C10—C11 112.15 (19)
C1—C2—C13 120.07 (19) C15—C10—C11 113.4 (2)
C2—C3—C12 132.96 (19) C9—C10—H10 106.9
C2—C3—C4 109.45 (18) C15—C10—H10 106.9
C12—C3—C4 117.38 (17) C11—C10—H10 106.9
O2—C4—C3 104.59 (16) C14—C11—C6 110.74 (18)
O2—C4—C5 111.93 (18) C14—C11—C10 110.26 (19)
C3—C4—C5 111.4 (2) C6—C11—C10 109.67 (16)
O2—C4—H4 109.6 C14—C11—C12 107.52 (16)
C3—C4—H4 109.6 C6—C11—C12 109.39 (17)
C5—C4—H4 109.6 C10—C11—C12 109.22 (17)
C4—C5—C6 109.90 (18) O3—C12—C3 108.46 (17)
C4—C5—H5A 109.7 O3—C12—C11 112.88 (18)
C6—C5—H5A 109.7 C3—C12—C11 110.02 (16)
C4—C5—H5B 109.7 O3—C12—H12 108.5
C6—C5—H5B 109.7 C3—C12—H12 108.5
H5A—C5—H5B 108.2 C11—C12—H12 108.5
C7—C6—C5 110.9 (2) C2—C13—H13A 109.5
C7—C6—C11 113.71 (18) C2—C13—H13B 109.5
C5—C6—C11 111.80 (17) H13A—C13—H13B 109.5
C7—C6—H6 106.7 C2—C13—H13C 109.5
C5—C6—H6 106.7 H13A—C13—H13C 109.5
C11—C6—H6 106.7 H13B—C13—H13C 109.5
C6—C7—C8 112.3 (2) C11—C14—H14A 109.5
C6—C7—H7A 109.1 C11—C14—H14B 109.5
C8—C7—H7A 109.1 H14A—C14—H14B 109.5
C6—C7—H7B 109.1 C11—C14—H14C 109.5
C8—C7—H7B 109.1 H14A—C14—H14C 109.5
H7A—C7—H7B 107.9 H14B—C14—H14C 109.5
C9—C8—C7 109.66 (18) C10—C15—H15A 109.5
C9—C8—H8A 109.7 C10—C15—H15B 109.5
C7—C8—H8A 109.7 H15A—C15—H15B 109.5
C9—C8—H8B 109.7 C10—C15—H15C 109.5
C7—C8—H8B 109.7 H15A—C15—H15C 109.5
H8A—C8—H8B 108.2 H15B—C15—H15C 109.5
C8—C9—C10 112.8 (2) C1—O2—C4 108.92 (16)
C8—C9—H9A 109.0 C12—O3—H3 109.5
C10—C9—H9A 109.0
O1—C1—C2—C3 −177.7 (3) C7—C6—C11—C10 50.5 (2)
O2—C1—C2—C3 1.0 (3) C5—C6—C11—C10 177.0 (2)
O1—C1—C2—C13 1.6 (4) C7—C6—C11—C12 −69.2 (2)
O2—C1—C2—C13 −179.7 (2) C5—C6—C11—C12 57.3 (2)
C1—C2—C3—C12 172.8 (2) C9—C10—C11—C14 −173.30 (18)
C13—C2—C3—C12 −6.4 (4) C15—C10—C11—C14 −47.6 (3)
C1—C2—C3—C4 −1.6 (3) C9—C10—C11—C6 −51.1 (2)
C13—C2—C3—C4 179.2 (3) C15—C10—C11—C6 74.6 (3)
C2—C3—C4—O2 1.6 (3) C9—C10—C11—C12 68.8 (2)
C12—C3—C4—O2 −173.75 (18) C15—C10—C11—C12 −165.52 (19)
C2—C3—C4—C5 122.8 (2) C2—C3—C12—O3 0.9 (3)
C12—C3—C4—C5 −52.6 (3) C4—C3—C12—O3 174.9 (2)
O2—C4—C5—C6 170.32 (18) C2—C3—C12—C11 −123.0 (3)
C3—C4—C5—C6 53.6 (3) C4—C3—C12—C11 51.0 (3)
C4—C5—C6—C7 69.5 (2) C14—C11—C12—O3 −52.3 (2)
C4—C5—C6—C11 −58.5 (3) C6—C11—C12—O3 −172.67 (16)
C5—C6—C7—C8 179.21 (18) C10—C11—C12—O3 67.3 (2)
C11—C6—C7—C8 −53.8 (3) C14—C11—C12—C3 69.0 (2)
C6—C7—C8—C9 55.2 (3) C6—C11—C12—C3 −51.4 (2)
C7—C8—C9—C10 −56.9 (3) C10—C11—C12—C3 −171.41 (18)
C8—C9—C10—C15 −71.1 (3) O1—C1—O2—C4 178.9 (2)
C8—C9—C10—C11 56.3 (3) C2—C1—O2—C4 0.1 (3)
C7—C6—C11—C14 172.43 (19) C3—C4—O2—C1 −1.0 (3)
C5—C6—C11—C14 −61.0 (3) C5—C4—O2—C1 −121.8 (2)

Hydrogen-bond geometry (Å, °)

D—H···A D—H H···A D···A D—H···A
O3—H3···O1i 0.82 2.18 2.931 (2) 152

Symmetry codes: (i) x+1, y, z.

Footnotes

Supplementary data and figures for this paper are available from the IUCr electronic archives (Reference: LD2005).

References

  1. Fu, K. Z., Yu, N. J., Zhang, Y. & Zhao, Y. M. (2007). Yaoxue Xuebao, 42, 621–624.
  2. Higashi, T. (1995). ABSCOR Rigaku Corporation, Tokyo, Japan.
  3. Rigaku (2000). RAPID-AUTO Rigaku Corporation, Tokyo, Japan.
  4. Rigaku/MSC (2000). Crystal Structure Rigaku/MSC, The Woodlands, Texas, USA.
  5. Sheldrick, G. M. (2008). Acta Cryst. A64, 112–122. [DOI] [PubMed]
  6. Wang, W. S., Gao, K., Yang, L. & Jia, Z. J. (2000). Planta Med. 66, 189–191. [DOI] [PubMed]

Associated Data

This section collects any data citations, data availability statements, or supplementary materials included in this article.

Supplementary Materials

Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536811016308/ld2005sup1.cif

e-67-o1361-sup1.cif (19.8KB, cif)

Structure factors: contains datablocks I. DOI: 10.1107/S1600536811016308/ld2005Isup2.hkl

e-67-o1361-Isup2.hkl (85.9KB, hkl)

Additional supplementary materials: crystallographic information; 3D view; checkCIF report


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