Kamebanin, alternatively called rel-(−)-(1R,4R,8S,9R,10S,13S,16R)-2,8,16-trihydroxy-5,5,9-trimethyl-14-methylenetetracyclo[11.2.1.01,10.04,9]hexadecan-15-one, C20H30O4, is a natural diterpenoid which has cytotoxic and antibacterial activity. The molecule is composed of three six-membered rings, which all adopt chair conformations, and one five-membered ring, which adopts an envelope conformation. The conjugated α-methylenecyclopentanone ring is the active part in the molecule due to the ring strain. All three hydroxy groups serve as hydrogen-bond donors and acceptors, forming a continuous two-dimensional network.
Supporting information
CCDC reference: 188614
Kamebarin was isolated (Hirotsu et al., 1973) from the aerial part of
Rabdosia leucophylla, which was collected from wild plants growing in the
Kangding region, Sichuan Province, People's Republic of China. Crystals
suitable for single-crystal X-ray diffraction analysis were obtained by slow
evaporation at room temperature of a solution in chloroform/methanol (1:1
v/v).
The orientations of the hydroxy H atoms were proved initially from difference
maps and were then refined by the SHELXL `nearest acceptor' method. The
H atoms were placed in geometrically calculated positions and included in the
final refinement as riding (C—H 0.93–0.98 Å) with Uiso values
equal to 1.2Ueq of the corresponding carrier atom. Friedel
reflections were merged before the final refinement and the relative
stereochemistry is shown in the Scheme and figures. The absolute configuration
is unknown.
Data collection: XSCANS (Siemens, 1994); cell refinement: XSCANS; data reduction: XSCANS; program(s) used to solve structure: SHELXS97 (Sheldrick, 1997); program(s) used to refine structure: SHELXL97 (Sheldrick, 1997); molecular graphics: PLATON (Spek, 2002); software used to prepare material for publication: SHELXL97.
rel-(-)-(1
R,4
R,8
S,9
R,10
S,13S,16
R)-2,8,16-trihydroxy-5,5,9-trimethyl-14-
methylenetetracyclo[11.2.1.0
1,10.0
4,9]hexadecan-15-one
top
Crystal data top
C20H30O4 | Dx = 1.224 Mg m−3 |
Mr = 334.44 | Melting point = 539–540 K |
Orthorhombic, P212121 | Mo Kα radiation, λ = 0.71073 Å |
Hall symbol: P 2ac 2ab | Cell parameters from 25 reflections |
a = 6.568 (1) Å | θ = 3.1–12.9° |
b = 13.282 (3) Å | µ = 0.08 mm−1 |
c = 20.801 (5) Å | T = 289 K |
V = 1814.6 (7) Å3 | Plate, colorless |
Z = 4 | 0.66 × 0.54 × 0.08 mm |
F(000) = 728 | |
Data collection top
Siemens P4 diffractometer | Rint = 0.016 |
Radiation source: normal-focus sealed tube | θmax = 26.5°, θmin = 1.8° |
Graphite monochromator | h = 0→8 |
ω scans | k = 0→16 |
2363 measured reflections | l = −1→26 |
2176 independent reflections | 3 standard reflections every 97 reflections |
1446 reflections with I > 2σ(I) | intensity decay: 0.4% |
Refinement top
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)] = 0.045 | H-atom parameters constrained |
wR(F2) = 0.105 | w = 1/[σ2(Fo2) + (0.0514P)2] where P = (Fo2 + 2Fc2)/3 |
S = 0.93 | (Δ/σ)max < 0.001 |
2176 reflections | Δρmax = 0.16 e Å−3 |
224 parameters | Δρmin = −0.16 e Å−3 |
0 restraints | Extinction correction: SHELXL97, Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4 |
Primary atom site location: structure-invariant direct methods | Extinction coefficient: 0.0071 (11) |
Crystal data top
C20H30O4 | V = 1814.6 (7) Å3 |
Mr = 334.44 | Z = 4 |
Orthorhombic, P212121 | Mo Kα radiation |
a = 6.568 (1) Å | µ = 0.08 mm−1 |
b = 13.282 (3) Å | T = 289 K |
c = 20.801 (5) Å | 0.66 × 0.54 × 0.08 mm |
Data collection top
Siemens P4 diffractometer | Rint = 0.016 |
2363 measured reflections | 3 standard reflections every 97 reflections |
2176 independent reflections | intensity decay: 0.4% |
1446 reflections with I > 2σ(I) | |
Refinement top
R[F2 > 2σ(F2)] = 0.045 | 0 restraints |
wR(F2) = 0.105 | H-atom parameters constrained |
S = 0.93 | Δρmax = 0.16 e Å−3 |
2176 reflections | Δρmin = −0.16 e Å−3 |
224 parameters | |
Special details top
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) top | x | y | z | Uiso*/Ueq | |
O1 | 0.3021 (4) | 0.11106 (14) | 0.33168 (11) | 0.0448 (6) | |
H1O | 0.2025 | 0.0824 | 0.3165 | 0.054* | |
O2 | 0.0783 (4) | 0.56849 (15) | 0.21511 (11) | 0.0467 (6) | |
H2O | 0.1697 | 0.5746 | 0.1886 | 0.056* | |
O3 | 0.3610 (3) | 0.50675 (15) | 0.13665 (11) | 0.0437 (6) | |
H3O | 0.4688 | 0.5358 | 0.1439 | 0.052* | |
O4 | −0.1655 (4) | 0.37908 (19) | 0.15809 (11) | 0.0547 (7) | |
C1 | 0.2431 (5) | 0.2081 (2) | 0.35526 (14) | 0.0376 (7) | |
H1 | 0.0942 | 0.2094 | 0.3582 | 0.045* | |
C2 | 0.3286 (6) | 0.2169 (2) | 0.42323 (14) | 0.0495 (9) | |
H2A | 0.2853 | 0.1592 | 0.4484 | 0.059* | |
H2B | 0.4761 | 0.2165 | 0.4215 | 0.059* | |
C3 | 0.2567 (7) | 0.3126 (2) | 0.45553 (15) | 0.0607 (11) | |
H3A | 0.3194 | 0.3172 | 0.4976 | 0.073* | |
H3B | 0.1106 | 0.3085 | 0.4618 | 0.073* | |
C4 | 0.3050 (6) | 0.4090 (3) | 0.41797 (16) | 0.0499 (9) | |
C5 | 0.2344 (5) | 0.3933 (2) | 0.34721 (13) | 0.0353 (7) | |
H5 | 0.0874 | 0.3824 | 0.3512 | 0.042* | |
C6 | 0.2499 (6) | 0.4876 (2) | 0.30524 (15) | 0.0417 (8) | |
H6A | 0.2150 | 0.5468 | 0.3302 | 0.050* | |
H6B | 0.3881 | 0.4954 | 0.2895 | 0.050* | |
C7 | 0.1042 (5) | 0.4762 (2) | 0.24928 (14) | 0.0336 (7) | |
H7 | −0.0288 | 0.4575 | 0.2670 | 0.040* | |
C8 | 0.1729 (5) | 0.3908 (2) | 0.20545 (13) | 0.0293 (7) | |
C9 | 0.1884 (4) | 0.2898 (2) | 0.24561 (13) | 0.0306 (7) | |
H9 | 0.0481 | 0.2750 | 0.2585 | 0.037* | |
C10 | 0.3109 (4) | 0.2964 (2) | 0.31095 (13) | 0.0295 (7) | |
C11 | 0.2474 (5) | 0.2022 (2) | 0.19915 (14) | 0.0392 (8) | |
H11A | 0.3062 | 0.1484 | 0.2246 | 0.047* | |
H11B | 0.1233 | 0.1763 | 0.1801 | 0.047* | |
C12 | 0.3958 (6) | 0.2271 (2) | 0.14481 (15) | 0.0484 (9) | |
H12A | 0.3896 | 0.1744 | 0.1125 | 0.058* | |
H12B | 0.5333 | 0.2288 | 0.1618 | 0.058* | |
C13 | 0.3471 (5) | 0.3285 (2) | 0.11334 (15) | 0.0388 (8) | |
H13 | 0.4375 | 0.3424 | 0.0769 | 0.047* | |
C14 | 0.3653 (5) | 0.4085 (2) | 0.16532 (15) | 0.0327 (7) | |
H14 | 0.4886 | 0.3989 | 0.1911 | 0.039* | |
C15 | 0.0163 (5) | 0.3707 (2) | 0.15325 (15) | 0.0362 (8) | |
C16 | 0.1270 (5) | 0.3354 (2) | 0.09450 (15) | 0.0430 (9) | |
C17 | 0.0352 (7) | 0.3149 (3) | 0.03994 (17) | 0.0679 (12) | |
H17A | −0.1052 | 0.3222 | 0.0365 | 0.081* | |
H17B | 0.1107 | 0.2932 | 0.0047 | 0.081* | |
C18 | 0.1781 (8) | 0.4934 (3) | 0.44865 (17) | 0.0789 (14) | |
H18A | 0.2229 | 0.5574 | 0.4324 | 0.095* | |
H18B | 0.1952 | 0.4918 | 0.4945 | 0.095* | |
H18C | 0.0370 | 0.4839 | 0.4383 | 0.095* | |
C19 | 0.5298 (6) | 0.4362 (3) | 0.42530 (17) | 0.0657 (12) | |
H19A | 0.6115 | 0.3771 | 0.4192 | 0.079* | |
H19B | 0.5532 | 0.4628 | 0.4676 | 0.079* | |
H19C | 0.5660 | 0.4859 | 0.3938 | 0.079* | |
C20 | 0.5413 (4) | 0.2926 (2) | 0.30027 (15) | 0.0397 (8) | |
H20A | 0.5729 | 0.2411 | 0.2695 | 0.048* | |
H20B | 0.6082 | 0.2779 | 0.3402 | 0.048* | |
H20C | 0.5875 | 0.3565 | 0.2844 | 0.048* | |
Atomic displacement parameters (Å2) top | U11 | U22 | U33 | U12 | U13 | U23 |
O1 | 0.0499 (15) | 0.0299 (11) | 0.0545 (14) | −0.0030 (11) | −0.0133 (13) | 0.0028 (11) |
O2 | 0.0508 (15) | 0.0356 (11) | 0.0538 (14) | 0.0128 (12) | −0.0023 (12) | 0.0065 (11) |
O3 | 0.0401 (14) | 0.0413 (12) | 0.0498 (13) | −0.0078 (11) | −0.0037 (12) | 0.0139 (11) |
O4 | 0.0311 (14) | 0.0787 (18) | 0.0543 (15) | −0.0050 (13) | −0.0040 (12) | −0.0034 (14) |
C1 | 0.0377 (17) | 0.0335 (15) | 0.0418 (18) | −0.0071 (16) | −0.0035 (16) | −0.0002 (15) |
C2 | 0.070 (2) | 0.0433 (18) | 0.0352 (17) | −0.013 (2) | −0.0089 (18) | 0.0131 (16) |
C3 | 0.089 (3) | 0.062 (2) | 0.0304 (17) | −0.010 (2) | −0.005 (2) | −0.0019 (17) |
C4 | 0.070 (3) | 0.045 (2) | 0.0352 (17) | −0.005 (2) | −0.0106 (19) | −0.0080 (16) |
C5 | 0.0395 (18) | 0.0325 (16) | 0.0340 (16) | −0.0011 (15) | −0.0017 (15) | −0.0042 (14) |
C6 | 0.048 (2) | 0.0334 (16) | 0.0436 (18) | 0.0047 (17) | −0.0053 (18) | −0.0039 (15) |
C7 | 0.0312 (16) | 0.0301 (15) | 0.0395 (17) | 0.0032 (14) | −0.0007 (16) | 0.0022 (13) |
C8 | 0.0276 (16) | 0.0265 (15) | 0.0338 (15) | 0.0010 (13) | −0.0014 (14) | −0.0007 (13) |
C9 | 0.0318 (15) | 0.0287 (14) | 0.0315 (15) | −0.0037 (15) | −0.0003 (14) | 0.0000 (13) |
C10 | 0.0303 (16) | 0.0282 (14) | 0.0300 (15) | −0.0009 (14) | −0.0029 (13) | 0.0017 (14) |
C11 | 0.049 (2) | 0.0283 (15) | 0.0403 (17) | 0.0016 (17) | −0.0009 (17) | −0.0021 (14) |
C12 | 0.056 (2) | 0.043 (2) | 0.0460 (19) | 0.0025 (18) | 0.0112 (19) | −0.0065 (16) |
C13 | 0.045 (2) | 0.0412 (18) | 0.0306 (15) | −0.0040 (16) | 0.0118 (16) | −0.0015 (14) |
C14 | 0.0272 (16) | 0.0328 (16) | 0.0381 (17) | 0.0001 (13) | 0.0021 (15) | 0.0057 (14) |
C15 | 0.0315 (18) | 0.0375 (17) | 0.0394 (18) | −0.0047 (14) | −0.0010 (15) | 0.0092 (16) |
C16 | 0.050 (2) | 0.0439 (19) | 0.0355 (17) | −0.0103 (17) | −0.0015 (17) | −0.0021 (15) |
C17 | 0.064 (3) | 0.088 (3) | 0.051 (2) | −0.006 (3) | −0.004 (2) | −0.010 (2) |
C18 | 0.119 (4) | 0.073 (3) | 0.045 (2) | 0.006 (3) | −0.010 (3) | −0.025 (2) |
C19 | 0.090 (3) | 0.057 (2) | 0.051 (2) | −0.014 (2) | −0.029 (2) | 0.0020 (19) |
C20 | 0.0363 (18) | 0.0366 (16) | 0.0461 (18) | −0.0017 (16) | −0.0077 (16) | 0.0045 (16) |
Geometric parameters (Å, º) top
O1—C1 | 1.432 (3) | C8—C9 | 1.583 (4) |
O1—H1O | 0.8200 | C9—C11 | 1.561 (4) |
O2—C7 | 1.427 (3) | C9—C10 | 1.582 (4) |
O2—H2O | 0.8200 | C9—H9 | 0.9800 |
O3—C14 | 1.435 (3) | C10—C20 | 1.531 (4) |
O3—H3O | 0.8200 | C11—C12 | 1.528 (4) |
O4—C15 | 1.204 (4) | C11—H11A | 0.9700 |
C1—C2 | 1.526 (4) | C11—H11B | 0.9700 |
C1—C10 | 1.557 (4) | C12—C13 | 1.531 (4) |
C1—H1 | 0.9800 | C12—H12A | 0.9700 |
C2—C3 | 1.514 (4) | C12—H12B | 0.9700 |
C2—H2A | 0.9700 | C13—C16 | 1.501 (5) |
C2—H2B | 0.9700 | C13—C14 | 1.521 (4) |
C3—C4 | 1.533 (4) | C13—H13 | 0.9800 |
C3—H3A | 0.9700 | C14—H14 | 0.9800 |
C3—H3B | 0.9700 | C15—C16 | 1.497 (4) |
C4—C19 | 1.528 (5) | C16—C17 | 1.313 (5) |
C4—C18 | 1.536 (5) | C17—H17A | 0.9300 |
C4—C5 | 1.557 (4) | C17—H17B | 0.9300 |
C5—C6 | 1.530 (4) | C18—H18A | 0.9600 |
C5—C10 | 1.574 (4) | C18—H18B | 0.9600 |
C5—H5 | 0.9800 | C18—H18C | 0.9600 |
C6—C7 | 1.515 (4) | C19—H19A | 0.9600 |
C6—H6A | 0.9700 | C19—H19B | 0.9600 |
C6—H6B | 0.9700 | C19—H19C | 0.9600 |
C7—C8 | 1.524 (4) | C20—H20A | 0.9600 |
C7—H7 | 0.9800 | C20—H20B | 0.9600 |
C8—C15 | 1.519 (4) | C20—H20C | 0.9600 |
C8—C14 | 1.533 (4) | | |
| | | |
C1—O1—H1O | 109.5 | C20—C10—C1 | 110.1 (3) |
C7—O2—H2O | 109.5 | C20—C10—C5 | 114.3 (3) |
C14—O3—H3O | 109.5 | C1—C10—C5 | 104.0 (2) |
O1—C1—C2 | 106.7 (2) | C20—C10—C9 | 112.1 (3) |
O1—C1—C10 | 113.4 (2) | C1—C10—C9 | 108.8 (2) |
C2—C1—C10 | 112.7 (2) | C5—C10—C9 | 107.1 (2) |
O1—C1—H1 | 107.9 | C12—C11—C9 | 117.1 (2) |
C2—C1—H1 | 107.9 | C12—C11—H11A | 108.0 |
C10—C1—H1 | 107.9 | C9—C11—H11A | 108.0 |
C3—C2—C1 | 111.2 (3) | C12—C11—H11B | 108.0 |
C3—C2—H2A | 109.4 | C9—C11—H11B | 108.0 |
C1—C2—H2A | 109.4 | H11A—C11—H11B | 107.3 |
C3—C2—H2B | 109.4 | C11—C12—C13 | 111.9 (3) |
C1—C2—H2B | 109.4 | C11—C12—H12A | 109.2 |
H2A—C2—H2B | 108.0 | C13—C12—H12A | 109.2 |
C2—C3—C4 | 114.3 (3) | C11—C12—H12B | 109.2 |
C2—C3—H3A | 108.7 | C13—C12—H12B | 109.2 |
C4—C3—H3A | 108.7 | H12A—C12—H12B | 107.9 |
C2—C3—H3B | 108.7 | C16—C13—C14 | 102.6 (3) |
C4—C3—H3B | 108.7 | C16—C13—C12 | 111.5 (3) |
H3A—C3—H3B | 107.6 | C14—C13—C12 | 107.1 (3) |
C19—C4—C3 | 110.3 (3) | C16—C13—H13 | 111.7 |
C19—C4—C18 | 108.1 (3) | C14—C13—H13 | 111.7 |
C3—C4—C18 | 106.6 (3) | C12—C13—H13 | 111.7 |
C19—C4—C5 | 114.4 (3) | O3—C14—C13 | 109.8 (2) |
C3—C4—C5 | 107.9 (3) | O3—C14—C8 | 110.5 (2) |
C18—C4—C5 | 109.2 (3) | C13—C14—C8 | 102.4 (2) |
C6—C5—C4 | 114.2 (2) | O3—C14—H14 | 111.3 |
C6—C5—C10 | 112.0 (2) | C13—C14—H14 | 111.3 |
C4—C5—C10 | 117.9 (3) | C8—C14—H14 | 111.3 |
C6—C5—H5 | 103.5 | O4—C15—C16 | 125.4 (3) |
C4—C5—H5 | 103.5 | O4—C15—C8 | 126.6 (3) |
C10—C5—H5 | 103.5 | C16—C15—C8 | 108.0 (3) |
C7—C6—C5 | 108.4 (3) | C17—C16—C15 | 123.2 (3) |
C7—C6—H6A | 110.0 | C17—C16—C13 | 130.9 (3) |
C5—C6—H6A | 110.0 | C15—C16—C13 | 105.9 (3) |
C7—C6—H6B | 110.0 | C16—C17—H17A | 120.0 |
C5—C6—H6B | 110.0 | C16—C17—H17B | 120.0 |
H6A—C6—H6B | 108.4 | H17A—C17—H17B | 120.0 |
O2—C7—C6 | 111.9 (2) | C4—C18—H18A | 109.5 |
O2—C7—C8 | 112.1 (2) | C4—C18—H18B | 109.5 |
C6—C7—C8 | 110.3 (2) | H18A—C18—H18B | 109.5 |
O2—C7—H7 | 107.4 | C4—C18—H18C | 109.5 |
C6—C7—H7 | 107.4 | H18A—C18—H18C | 109.5 |
C8—C7—H7 | 107.4 | H18B—C18—H18C | 109.5 |
C15—C8—C7 | 111.0 (3) | C4—C19—H19A | 109.5 |
C15—C8—C14 | 101.3 (2) | C4—C19—H19B | 109.5 |
C7—C8—C14 | 117.1 (2) | H19A—C19—H19B | 109.5 |
C15—C8—C9 | 105.8 (2) | C4—C19—H19C | 109.5 |
C7—C8—C9 | 109.5 (2) | H19A—C19—H19C | 109.5 |
C14—C8—C9 | 111.4 (2) | H19B—C19—H19C | 109.5 |
C11—C9—C10 | 116.5 (2) | C10—C20—H20A | 109.5 |
C11—C9—C8 | 108.7 (2) | C10—C20—H20B | 109.5 |
C10—C9—C8 | 116.1 (2) | H20A—C20—H20B | 109.5 |
C11—C9—H9 | 104.7 | C10—C20—H20C | 109.5 |
C10—C9—H9 | 104.7 | H20A—C20—H20C | 109.5 |
C8—C9—H9 | 104.7 | H20B—C20—H20C | 109.5 |
| | | |
O1—C1—C2—C3 | −174.1 (3) | C6—C5—C10—C9 | −53.9 (3) |
C10—C1—C2—C3 | 60.8 (4) | C4—C5—C10—C9 | 170.5 (3) |
C1—C2—C3—C4 | −55.6 (4) | C11—C9—C10—C20 | 50.5 (3) |
C2—C3—C4—C19 | −76.4 (4) | C8—C9—C10—C20 | −79.6 (3) |
C2—C3—C4—C18 | 166.5 (3) | C11—C9—C10—C1 | −71.6 (3) |
C2—C3—C4—C5 | 49.3 (4) | C8—C9—C10—C1 | 158.4 (2) |
C19—C4—C5—C6 | −63.5 (4) | C11—C9—C10—C5 | 176.6 (2) |
C3—C4—C5—C6 | 173.3 (3) | C8—C9—C10—C5 | 46.6 (3) |
C18—C4—C5—C6 | 57.8 (4) | C10—C9—C11—C12 | −96.9 (3) |
C19—C4—C5—C10 | 71.1 (4) | C8—C9—C11—C12 | 36.5 (4) |
C3—C4—C5—C10 | −52.1 (4) | C9—C11—C12—C13 | −42.2 (4) |
C18—C4—C5—C10 | −167.6 (3) | C11—C12—C13—C16 | −50.9 (3) |
C4—C5—C6—C7 | −157.3 (3) | C11—C12—C13—C14 | 60.7 (3) |
C10—C5—C6—C7 | 65.4 (3) | C16—C13—C14—O3 | −73.7 (3) |
C5—C6—C7—O2 | 168.1 (3) | C12—C13—C14—O3 | 168.7 (3) |
C5—C6—C7—C8 | −66.3 (3) | C16—C13—C14—C8 | 43.6 (3) |
O2—C7—C8—C15 | −60.9 (3) | C12—C13—C14—C8 | −73.9 (3) |
C6—C7—C8—C15 | 173.7 (2) | C15—C8—C14—O3 | 76.2 (3) |
O2—C7—C8—C14 | 54.7 (3) | C7—C8—C14—O3 | −44.6 (3) |
C6—C7—C8—C14 | −70.7 (3) | C9—C8—C14—O3 | −171.7 (2) |
O2—C7—C8—C9 | −177.3 (2) | C15—C8—C14—C13 | −40.7 (3) |
C6—C7—C8—C9 | 57.3 (3) | C7—C8—C14—C13 | −161.5 (2) |
C15—C8—C9—C11 | 57.3 (3) | C9—C8—C14—C13 | 71.4 (3) |
C7—C8—C9—C11 | 176.9 (2) | C7—C8—C15—O4 | −33.4 (4) |
C14—C8—C9—C11 | −51.9 (3) | C14—C8—C15—O4 | −158.4 (3) |
C15—C8—C9—C10 | −169.0 (2) | C9—C8—C15—O4 | 85.3 (4) |
C7—C8—C9—C10 | −49.4 (3) | C7—C8—C15—C16 | 148.2 (2) |
C14—C8—C9—C10 | 81.8 (3) | C14—C8—C15—C16 | 23.1 (3) |
O1—C1—C10—C20 | −55.9 (3) | C9—C8—C15—C16 | −93.1 (3) |
C2—C1—C10—C20 | 65.5 (3) | O4—C15—C16—C17 | 4.0 (5) |
O1—C1—C10—C5 | −178.7 (3) | C8—C15—C16—C17 | −177.5 (3) |
C2—C1—C10—C5 | −57.4 (3) | O4—C15—C16—C13 | −175.0 (3) |
O1—C1—C10—C9 | 67.4 (3) | C8—C15—C16—C13 | 3.5 (3) |
C2—C1—C10—C9 | −171.3 (3) | C14—C13—C16—C17 | 152.1 (4) |
C6—C5—C10—C20 | 70.9 (3) | C12—C13—C16—C17 | −93.5 (4) |
C4—C5—C10—C20 | −64.6 (4) | C14—C13—C16—C15 | −29.0 (3) |
C6—C5—C10—C1 | −169.0 (3) | C12—C13—C16—C15 | 85.4 (3) |
C4—C5—C10—C1 | 55.5 (3) | | |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
O2—H2O···O3 | 0.82 | 1.89 | 2.605 (3) | 146 |
O1—H1O···O2i | 0.82 | 1.97 | 2.741 (3) | 157 |
O3—H3O···O1ii | 0.82 | 1.88 | 2.692 (3) | 173 |
Symmetry codes: (i) −x, y−1/2, −z+1/2; (ii) −x+1, y+1/2, −z+1/2. |
Experimental details
Crystal data |
Chemical formula | C20H30O4 |
Mr | 334.44 |
Crystal system, space group | Orthorhombic, P212121 |
Temperature (K) | 289 |
a, b, c (Å) | 6.568 (1), 13.282 (3), 20.801 (5) |
V (Å3) | 1814.6 (7) |
Z | 4 |
Radiation type | Mo Kα |
µ (mm−1) | 0.08 |
Crystal size (mm) | 0.66 × 0.54 × 0.08 |
|
Data collection |
Diffractometer | Siemens P4 diffractometer |
Absorption correction | – |
No. of measured, independent and observed [I > 2σ(I)] reflections | 2363, 2176, 1446 |
Rint | 0.016 |
(sin θ/λ)max (Å−1) | 0.628 |
|
Refinement |
R[F2 > 2σ(F2)], wR(F2), S | 0.045, 0.105, 0.93 |
No. of reflections | 2176 |
No. of parameters | 224 |
H-atom treatment | H-atom parameters constrained |
Δρmax, Δρmin (e Å−3) | 0.16, −0.16 |
Selected geometric parameters (Å, º) topO1—C1 | 1.432 (3) | C8—C14 | 1.533 (4) |
O2—C7 | 1.427 (3) | C13—C16 | 1.501 (5) |
O3—C14 | 1.435 (3) | C13—C14 | 1.521 (4) |
O4—C15 | 1.204 (4) | C15—C16 | 1.497 (4) |
C8—C15 | 1.519 (4) | C16—C17 | 1.313 (5) |
| | | |
C15—C8—C14 | 101.3 (2) | C16—C15—C8 | 108.0 (3) |
C7—C8—C14 | 117.1 (2) | C17—C16—C15 | 123.2 (3) |
C16—C13—C14 | 102.6 (3) | C17—C16—C13 | 130.9 (3) |
O4—C15—C16 | 125.4 (3) | C15—C16—C13 | 105.9 (3) |
O4—C15—C8 | 126.6 (3) | | |
Hydrogen-bond geometry (Å, º) top
D—H···A | D—H | H···A | D···A | D—H···A |
O2—H2O···O3 | 0.82 | 1.89 | 2.605 (3) | 146 |
O1—H1O···O2i | 0.82 | 1.97 | 2.741 (3) | 157 |
O3—H3O···O1ii | 0.82 | 1.88 | 2.692 (3) | 173 |
Symmetry codes: (i) −x, y−1/2, −z+1/2; (ii) −x+1, y+1/2, −z+1/2. |
The diterpenoid kamebanin, (I), has been previously isolated from the dry leaves of Rabdosia Kameba, from which mebadonin was also isolated earlier (Hirotsu et al., 1973), it possesses significant in vitro cytotoxicity (KB) and in vivo tumor inhibitory activity against Walker intramuscular carcinosarcoma in rats, and specific insecticidal activity against Lepidoptera larvae (Kubo et al., 1977). Its cytotoxic activity against KB tissue culture (LD50) was 5.1 µg ml-1 and the antibacterial activity against Bacillus subtilis was 10 µg ml-1 (Yamaguchi et al., 1977). Its structure was established from spectroscopic evidence (Kubo et al., 1977). The structure of kamebanin has now been confirmed by X-ray diffraction.
The molecule (Fig. 1) contains three six-membered rings and one five-membered ring: ring A (C1–C5/C10) adopts a chair conformation, with puckering parameters (Cremer & Pople, 1975) Q = 0.571 (3) Å, θ = 179.5 (4)° and ϕ = 271 (17)°; ring B (C5–C10) also adopts a chair conformation, with Q = 0.598 (3) Å, θ = 168.7 (3)° and ϕ = 245.9 (15)°; ring C (C8/C9/C11–C14) adopts a chair conformation, with Q = 0.639 (3) Å, θ = 23.9 (3)° and ϕ = 289.4 (7)°; ring D (C8/C13–C16) adopts an envelope conformation, with the apex at C14, displaced by 0.657 (3) Å from the mean plane of the remaining four atoms.
Ring D is a conjugated α-methylenecyclopentanone and it has been found that the α-methylenecyclopentanone ring in Rabdosia diterpenes is highly reactive toward sulfhydryl (thiol) groups essential to enzyme function (Yamaguchi et al., 1977). It is believed that steric strain within the five-membered ring helps to increase the reactivity of the conjugated double bond (Chen et al., 1987). The extent of the deviation in the bond angles about C15 and C16 from ideal sp2 angles (Table 1) shows that there must be significant strain within the five-membered ring. The deviation from ideal sp3 angles around C8 shows the steric strain within ring D also.
Xindongnin B (Fig. 2) has the same skeleton as kamebanin and its ring D adopts an envelope conformation with the apex at C14, displaced by 0.709 (7) Å from the mean plane of the remaining four atoms. The bond angle C16—C15—C8 is 109.3 (7)° and C15—C16—C13 is 105.0 (6)° (Wang et al., 1992), similar to the corresponding angles in kamebanin.
If an addition reaction takes place on the double bond of the α-methylenecyclopentanone ring, the ideal bond angles around C15 and C16 will approach 109.5°, which is close to the ideal angle for a five-membered ring. The steric strain within the α-methylenecyclopentanone apparently increases the reactivity of the conjugated double bond, which may act via a similar `Michael additional-type' reaction.
All three hydroxy groups in kamebanin serve as simultaneous hydrogen-bond donors and acceptors, resultiong in one intramolecular and two intermolecular O—H···O hydrogen bonds. An infinite two-dimensional network is formed parallel to (001) (Fig. 3). It is believed that the hydroxy groups help the molecule to bind to enzymes in the organism, and that these hydroxyl groups, in addition to an α-methylenecyclopentanone group, are required for inhibitory activity (Yamaguchi et al., 1977).