Literature DB >> 21589075

ent-5α,3,15-Dioxodolabr-4(18)-ene-16,18-diol.

Hoong-Kun Fun, Charoen Pakathirathien, Chatchanok Karalai, Suchada Chantrapromma.   

Abstract

The title compound, C(20)H(30)O(4), is a dolabrane diterpenoid isolated from Ceriops tagal, in which one of the three fused cyclo-hexane rings adopts a half-chair conformation and the other two are in the standard chair conformations. The hy-droxy-methyl-idene substituent is attached to the half-chair cyclo-hexane. An intra-molecular O-H⋯O hydrogen bond generate an S(6) ring motif. In the crystal, mol-ecules are arranged into screw chains along the [001] direction. The crystal is stabilized by O-H⋯O hydrogen bonds and weaker C-H⋯O inter-actions.

Entities:  

Year:  2010        PMID: 21589075      PMCID: PMC3009018          DOI: 10.1107/S1600536810042078

Source DB:  PubMed          Journal:  Acta Crystallogr Sect E Struct Rep Online        ISSN: 1600-5368


Related literature

For hydrogen-bond motifs, see: Bernstein et al. (1995 ▶). For bond-length data, see: Allen et al. (1987 ▶). For ring conformations, see: Cremer & Pople (1975 ▶). For background to diterpenoids, see, for example: Hu et al. (2010 ▶); Zhang et al. (2005 ▶). For related structures, see: Chantrapromma et al. (2007 ▶); Fun et al. (2006 ▶). For the stability of the temperature controller used in the data collection, see Cosier & Glazer, (1986 ▶).

Experimental

Crystal data

C20H30O4 M = 334.44 Orthorhombic, a = 7.9633 (3) Å b = 10.7166 (4) Å c = 20.8338 (7) Å V = 1777.95 (11) Å3 Z = 4 Mo Kα radiation μ = 0.09 mm−1 T = 100 K 0.58 × 0.51 × 0.10 mm

Data collection

Bruker APEXII CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2005 ▶) T min = 0.952, T max = 0.992 20568 measured reflections 2691 independent reflections 2084 reflections with I > 2σ(I) R int = 0.030

Refinement

R[F 2 > 2σ(F 2)] = 0.052 wR(F 2) = 0.157 S = 1.09 2691 reflections 220 parameters H-atom parameters constrained Δρmax = 0.31 e Å−3 Δρmin = −0.45 e Å−3 Data collection: APEX2 (Bruker, 2005 ▶); cell refinement: SAINT (Bruker, 2005 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXTL (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXTL; molecular graphics: SHELXTL; software used to prepare material for publication: SHELXTL and PLATON (Spek, 2009 ▶). Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536810042078/fj2353sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810042078/fj2353Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C20H30O4Dx = 1.249 Mg m3
Mr = 334.44Melting point = 495–496 K
Orthorhombic, P212121Mo Kα radiation, λ = 0.71073 Å
Hall symbol: P 2ac 2abCell parameters from 2691 reflections
a = 7.9633 (3) Åθ = 2.0–29.0°
b = 10.7166 (4) ŵ = 0.09 mm1
c = 20.8338 (7) ÅT = 100 K
V = 1777.95 (11) Å3Plate, colourless
Z = 40.58 × 0.51 × 0.10 mm
F(000) = 728
Bruker APEXII CCD area-detector diffractometer2691 independent reflections
Radiation source: sealed tube2084 reflections with I > 2σ(I)
graphiteRint = 0.030
φ and ω scansθmax = 29.0°, θmin = 2.0°
Absorption correction: multi-scan (SADABS; Bruker, 2005)h = −10→10
Tmin = 0.952, Tmax = 0.992k = −14→10
20568 measured reflectionsl = −24→28
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.052Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.157H-atom parameters constrained
S = 1.09w = 1/[σ2(Fo2) + (0.077P)2 + 0.7994P] where P = (Fo2 + 2Fc2)/3
2691 reflections(Δ/σ)max < 0.001
220 parametersΔρmax = 0.31 e Å3
0 restraintsΔρmin = −0.44 e Å3
Experimental. The crystal was placed in the cold stream of an Oxford Cryosystems Cobra open-flow nitrogen cryostat (Cosier & Glazer, 1986) operating at 100.0 (1) K.
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.
xyzUiso*/Ueq
O10.9767 (3)0.4254 (2)0.05460 (11)0.0420 (6)
O21.2362 (4)0.3517 (3)0.10215 (15)0.0633 (8)
H1O21.17240.39880.08300.095*
O30.5983 (4)0.4271 (2)0.41250 (10)0.0413 (6)
O40.6697 (4)0.3378 (2)0.52946 (11)0.0552 (8)
H1O40.61020.40000.52730.083*
C10.6196 (4)0.2200 (3)0.09423 (15)0.0360 (8)
H1A0.57590.15500.06650.043*
H1B0.52420.26580.11100.043*
C20.7243 (4)0.3092 (3)0.05327 (15)0.0379 (8)
H2A0.72180.27920.00940.045*
H2B0.66960.39000.05370.045*
C30.9026 (4)0.3276 (3)0.07172 (13)0.0294 (7)
C40.9885 (3)0.2325 (3)0.10845 (12)0.0221 (5)
C50.8927 (4)0.1186 (3)0.13108 (13)0.0230 (6)
C60.9782 (4)0.0532 (3)0.18765 (13)0.0301 (7)
H6A0.9239−0.02670.19470.036*
H6B1.09440.03700.17650.036*
C70.9731 (4)0.1276 (3)0.24997 (14)0.0272 (6)
H7A1.03370.20540.24460.033*
H7B1.02690.08050.28400.033*
C80.7911 (4)0.1547 (2)0.26801 (13)0.0226 (6)
H8A0.73440.07370.27080.027*
C90.6987 (3)0.2298 (2)0.21580 (13)0.0200 (5)
C100.7108 (4)0.1569 (3)0.15117 (13)0.0241 (6)
H10A0.65100.07830.15850.029*
C110.5122 (4)0.2385 (3)0.23683 (14)0.0318 (7)
H11A0.45140.28890.20590.038*
H11B0.46360.15550.23630.038*
C120.4884 (4)0.2955 (3)0.30434 (14)0.0338 (7)
H12A0.52000.38280.30300.041*
H12B0.37050.29120.31570.041*
C130.5915 (4)0.2302 (3)0.35673 (14)0.0276 (6)
C140.7769 (4)0.2146 (2)0.33451 (13)0.0227 (6)
H14A0.83050.29580.33360.027*
H14B0.83640.16330.36540.027*
C150.6017 (4)0.3139 (3)0.41616 (14)0.0290 (6)
C160.6242 (5)0.2539 (3)0.48109 (14)0.0394 (8)
H16A0.52010.21330.49320.047*
H16B0.71000.19000.47780.047*
C170.5129 (5)0.1042 (3)0.37320 (18)0.0463 (9)
H17A0.40500.11720.39260.070*
H17B0.58440.06030.40260.070*
H17C0.49980.05590.33470.070*
C181.1538 (4)0.2500 (3)0.11951 (15)0.0342 (7)
H18A1.21300.18720.14040.041*
C190.8839 (5)0.0238 (3)0.07522 (15)0.0352 (7)
H19A0.9938−0.00990.06740.053*
H19B0.84410.06490.03720.053*
H19C0.8085−0.04270.08640.053*
C200.7677 (4)0.3630 (2)0.21044 (13)0.0236 (6)
H20A0.73700.40950.24800.035*
H20B0.72130.40260.17310.035*
H20C0.88780.36020.20680.035*
U11U22U33U12U13U23
O10.0564 (16)0.0328 (12)0.0369 (12)0.0036 (12)0.0098 (12)0.0126 (10)
O20.0435 (16)0.0705 (19)0.076 (2)−0.0151 (15)0.0071 (15)0.0049 (17)
O30.0643 (16)0.0281 (11)0.0314 (11)0.0050 (12)−0.0030 (12)−0.0080 (10)
O40.088 (2)0.0437 (14)0.0337 (12)0.0225 (15)−0.0180 (13)−0.0096 (11)
C10.0222 (14)0.056 (2)0.0301 (15)0.0036 (14)−0.0107 (12)−0.0167 (15)
C20.0410 (19)0.0438 (19)0.0290 (16)0.0139 (16)−0.0147 (14)−0.0040 (14)
C30.0375 (16)0.0331 (16)0.0177 (13)0.0076 (14)0.0011 (12)0.0008 (12)
C40.0231 (13)0.0252 (13)0.0180 (12)0.0007 (11)−0.0014 (10)−0.0005 (10)
C50.0233 (13)0.0212 (13)0.0245 (13)0.0021 (11)−0.0020 (11)−0.0020 (10)
C60.0374 (17)0.0228 (14)0.0303 (14)0.0123 (13)0.0022 (13)0.0022 (12)
C70.0310 (15)0.0272 (14)0.0232 (12)0.0127 (13)−0.0015 (12)0.0032 (11)
C80.0289 (14)0.0133 (11)0.0254 (13)0.0001 (11)0.0041 (11)0.0011 (10)
C90.0154 (11)0.0198 (12)0.0248 (13)−0.0013 (10)−0.0024 (10)−0.0051 (11)
C100.0212 (13)0.0241 (14)0.0269 (14)−0.0030 (11)−0.0016 (11)−0.0068 (12)
C110.0190 (13)0.0440 (18)0.0325 (16)−0.0016 (13)−0.0016 (11)−0.0148 (14)
C120.0187 (14)0.0483 (18)0.0345 (15)0.0004 (14)0.0012 (12)−0.0138 (14)
C130.0288 (14)0.0250 (14)0.0290 (14)−0.0062 (13)0.0068 (12)−0.0070 (12)
C140.0293 (14)0.0145 (12)0.0242 (13)0.0027 (11)0.0002 (11)0.0009 (10)
C150.0265 (14)0.0320 (15)0.0286 (15)0.0014 (13)0.0044 (12)−0.0051 (12)
C160.050 (2)0.0347 (17)0.0333 (18)0.0056 (17)0.0005 (15)−0.0039 (15)
C170.057 (2)0.0367 (18)0.0451 (19)−0.0219 (17)0.0195 (18)−0.0115 (15)
C180.0254 (14)0.0401 (18)0.0372 (17)−0.0031 (14)−0.0048 (13)0.0034 (15)
C190.0434 (19)0.0287 (15)0.0335 (16)0.0018 (15)0.0058 (15)−0.0086 (13)
C200.0285 (14)0.0170 (12)0.0253 (13)0.0036 (11)−0.0081 (11)−0.0002 (11)
O1—C31.254 (4)C9—C201.534 (4)
O2—C181.323 (4)C9—C111.551 (4)
O2—H1O20.8200C9—C101.560 (4)
O3—C151.216 (4)C10—H10A0.9800
O4—C161.398 (4)C11—C121.545 (4)
O4—H1O40.8200C11—H11A0.9700
C1—C21.529 (5)C11—H11B0.9700
C1—C101.547 (4)C12—C131.535 (4)
C1—H1A0.9700C12—H12A0.9700
C1—H1B0.9700C12—H12B0.9700
C2—C31.484 (5)C13—C171.527 (4)
C2—H2A0.9700C13—C151.531 (4)
C2—H2B0.9700C13—C141.556 (4)
C3—C41.446 (4)C14—H14A0.9700
C4—C181.350 (4)C14—H14B0.9700
C4—C51.515 (4)C15—C161.508 (4)
C5—C61.531 (4)C16—H16A0.9700
C5—C191.547 (4)C16—H16B0.9700
C5—C101.563 (4)C17—H17A0.9600
C6—C71.525 (4)C17—H17B0.9600
C6—H6A0.9700C17—H17C0.9600
C6—H6B0.9700C18—H18A0.9300
C7—C81.525 (4)C19—H19A0.9600
C7—H7A0.9700C19—H19B0.9600
C7—H7B0.9700C19—H19C0.9600
C8—C141.531 (4)C20—H20A0.9600
C8—C91.540 (4)C20—H20B0.9600
C8—H8A0.9800C20—H20C0.9600
C18—O2—H1O2109.5C5—C10—H10A105.5
C16—O4—H1O4109.5C12—C11—C9113.5 (2)
C2—C1—C10116.4 (3)C12—C11—H11A108.9
C2—C1—H1A108.2C9—C11—H11A108.9
C10—C1—H1A108.2C12—C11—H11B108.9
C2—C1—H1B108.2C9—C11—H11B108.9
C10—C1—H1B108.2H11A—C11—H11B107.7
H1A—C1—H1B107.3C13—C12—C11113.7 (3)
C3—C2—C1117.4 (3)C13—C12—H12A108.8
C3—C2—H2A107.9C11—C12—H12A108.8
C1—C2—H2A107.9C13—C12—H12B108.8
C3—C2—H2B107.9C11—C12—H12B108.8
C1—C2—H2B107.9H12A—C12—H12B107.7
H2A—C2—H2B107.2C17—C13—C15111.0 (2)
O1—C3—C4121.1 (3)C17—C13—C12110.1 (3)
O1—C3—C2119.2 (3)C15—C13—C12109.7 (2)
C4—C3—C2119.7 (3)C17—C13—C14111.2 (3)
C18—C4—C3117.0 (3)C15—C13—C14104.7 (2)
C18—C4—C5123.4 (3)C12—C13—C14110.2 (2)
C3—C4—C5119.6 (3)C8—C14—C13112.6 (2)
C4—C5—C6112.6 (2)C8—C14—H14A109.1
C4—C5—C19108.5 (2)C13—C14—H14A109.1
C6—C5—C19107.4 (2)C8—C14—H14B109.1
C4—C5—C10109.8 (2)C13—C14—H14B109.1
C6—C5—C10109.0 (2)H14A—C14—H14B107.8
C19—C5—C10109.4 (2)O3—C15—C16118.9 (3)
C7—C6—C5113.8 (2)O3—C15—C13122.2 (3)
C7—C6—H6A108.8C16—C15—C13118.8 (3)
C5—C6—H6A108.8O4—C16—C15113.8 (3)
C7—C6—H6B108.8O4—C16—H16A108.8
C5—C6—H6B108.8C15—C16—H16A108.8
H6A—C6—H6B107.7O4—C16—H16B108.8
C6—C7—C8109.5 (3)C15—C16—H16B108.8
C6—C7—H7A109.8H16A—C16—H16B107.7
C8—C7—H7A109.8C13—C17—H17A109.5
C6—C7—H7B109.8C13—C17—H17B109.5
C8—C7—H7B109.8H17A—C17—H17B109.5
H7A—C7—H7B108.2C13—C17—H17C109.5
C7—C8—C14111.9 (2)H17A—C17—H17C109.5
C7—C8—C9112.3 (2)H17B—C17—H17C109.5
C14—C8—C9112.6 (2)O2—C18—C4123.4 (3)
C7—C8—H8A106.5O2—C18—H18A118.3
C14—C8—H8A106.5C4—C18—H18A118.3
C9—C8—H8A106.5C5—C19—H19A109.5
C20—C9—C8111.5 (2)C5—C19—H19B109.5
C20—C9—C11107.9 (2)H19A—C19—H19B109.5
C8—C9—C11106.8 (2)C5—C19—H19C109.5
C20—C9—C10112.4 (2)H19A—C19—H19C109.5
C8—C9—C10108.6 (2)H19B—C19—H19C109.5
C11—C9—C10109.5 (2)C9—C20—H20A109.5
C1—C10—C9114.5 (2)C9—C20—H20B109.5
C1—C10—C5110.2 (2)H20A—C20—H20B109.5
C9—C10—C5114.9 (2)C9—C20—H20C109.5
C1—C10—H10A105.5H20A—C20—H20C109.5
C9—C10—H10A105.5H20B—C20—H20C109.5
C10—C1—C2—C3−0.2 (4)C8—C9—C10—C5−52.4 (3)
C1—C2—C3—O1−157.0 (3)C11—C9—C10—C5−168.7 (3)
C1—C2—C3—C423.7 (4)C4—C5—C10—C157.8 (3)
O1—C3—C4—C18−4.4 (4)C6—C5—C10—C1−178.4 (2)
C2—C3—C4—C18175.0 (3)C19—C5—C10—C1−61.2 (3)
O1—C3—C4—C5177.0 (2)C4—C5—C10—C9−73.3 (3)
C2—C3—C4—C5−3.6 (4)C6—C5—C10—C950.6 (3)
C18—C4—C5—C622.3 (4)C19—C5—C10—C9167.7 (2)
C3—C4—C5—C6−159.2 (2)C20—C9—C11—C12−64.2 (3)
C18—C4—C5—C19−96.4 (3)C8—C9—C11—C1255.8 (3)
C3—C4—C5—C1982.1 (3)C10—C9—C11—C12173.2 (3)
C18—C4—C5—C10144.0 (3)C9—C11—C12—C13−53.6 (4)
C3—C4—C5—C10−37.5 (3)C11—C12—C13—C17−74.3 (3)
C4—C5—C6—C769.2 (3)C11—C12—C13—C15163.3 (3)
C19—C5—C6—C7−171.3 (3)C11—C12—C13—C1448.6 (3)
C10—C5—C6—C7−52.9 (3)C7—C8—C14—C13−174.0 (2)
C5—C6—C7—C858.1 (3)C9—C8—C14—C1358.3 (3)
C6—C7—C8—C14172.7 (2)C17—C13—C14—C871.3 (3)
C6—C7—C8—C9−59.5 (3)C15—C13—C14—C8−168.8 (2)
C7—C8—C9—C20−68.1 (3)C12—C13—C14—C8−51.0 (3)
C14—C8—C9—C2059.3 (3)C17—C13—C15—O3−151.8 (4)
C7—C8—C9—C11174.2 (2)C12—C13—C15—O3−30.0 (4)
C14—C8—C9—C11−58.4 (3)C14—C13—C15—O388.2 (4)
C7—C8—C9—C1056.2 (3)C17—C13—C15—C1631.0 (4)
C14—C8—C9—C10−176.4 (2)C12—C13—C15—C16152.8 (3)
C2—C1—C10—C991.3 (3)C14—C13—C15—C16−89.0 (3)
C2—C1—C10—C5−40.0 (3)O3—C15—C16—O4−11.1 (5)
C20—C9—C10—C1−57.5 (3)C13—C15—C16—O4166.3 (3)
C8—C9—C10—C1178.7 (2)C3—C4—C18—O24.4 (5)
C11—C9—C10—C162.4 (3)C5—C4—C18—O2−177.1 (3)
C20—C9—C10—C571.4 (3)
D—H···AD—HH···AD···AD—H···A
O2—H1O2···O10.821.692.424 (4)148
O4—H1O4···O1i0.822.072.841 (3)156
C1—H1B···O2ii0.972.483.368 (5)152
C12—H12A···O30.972.412.799 (4)103
C17—H17A···O4iii0.962.533.460 (5)164
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O2—H1O2⋯O10.821.692.424 (4)148
O4—H1O4⋯O1i0.822.072.841 (3)156
C1—H1B⋯O2ii0.972.483.368 (5)152
C12—H12A⋯O30.972.412.799 (4)103
C17—H17A⋯O4iii0.962.533.460 (5)164

Symmetry codes: (i) ; (ii) ; (iii) .

  4 in total

1.  A short history of SHELX.

Authors:  George M Sheldrick
Journal:  Acta Crystallogr A       Date:  2007-12-21       Impact factor: 2.290

2.  Tagalsins A-H, dolabrane-type diterpenes from the mangrove plant, Ceriops tagal.

Authors:  Yan Zhang; Zhiwei Deng; Tianxiang Gao; Peter Proksch; Wenhan Lin
Journal:  Phytochemistry       Date:  2005-06       Impact factor: 4.072

3.  Dolabranes from the Chinese Mangrove, Ceriops tagal.

Authors:  Wei-Min Hu; Min-Yi Li; Jun Li; Qiang Xiao; Gang Feng; Jun Wu
Journal:  J Nat Prod       Date:  2010-10-01       Impact factor: 4.050

4.  Structure validation in chemical crystallography.

Authors:  Anthony L Spek
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-01-20
  4 in total
  1 in total

1.  ent-(15S)-Pimar-8(14)-ene-15,16-diol.

Authors:  Hoong-Kun Fun; Suchada Chantrapromma; Charoen Pakhathirathien; Chatchanok Karalai; Kan Chantrapromma
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-01-25
  1 in total

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