Literature DB >> 23476308

Glabridin.

Vimon Tantishaiyakul1, Krit Suknuntha, Saowanit Saithong, Chaveng Pakawatchai.   

Abstract

In the title compound, C20H20O4 {systematic name: 4-[(3R)-8,8-dimethyl-3,4-dihydro-2H-pyrano[2,3-f]chromen-3-yl]benz-ene-1,3-diol}, the hydro-pyran ring linked to the pendant benzene ring adopts an envelope conformation, with the methyne C atom forming the flap. In the crystal, the -OH group at the 3-position of the benzene ring forms an O-H⋯O hydrogen bond to a chromene O-atom acceptor, whereas the -OH group at the 1-position forms an O-H⋯π inter-action with a neighboring benzene ring. The O-H⋯O hydrogen bonds form [001] chains and the O-H⋯π bonds cross-link the chains into (101) sheets. The absolute structure was assumed to be the same as that deduced from previous studies for the natural product.

Entities:  

Year:  2012        PMID: 23476308      PMCID: PMC3589072          DOI: 10.1107/S1600536812048647

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


Related literature

For background to the pharmacological activity of the title compound, see: Fukai et al. (2000 ▶); Messier & Grenier; (2011 ▶); Thiyagarajan et al. (2011 ▶); Ahn et al. (2012 ▶); Choi (2005 ▶). For the assignment of the absolute structure, see: Kim et al. (2009 ▶).

Experimental

Crystal data

C20H20O4 M = 324.36 Orthorhombic, a = 6.4301 (4) Å b = 12.0307 (7) Å c = 21.0690 (13) Å V = 1629.87 (17) Å3 Z = 4 Mo Kα radiation μ = 0.09 mm−1 T = 293 K 0.22 × 0.14 × 0.07 mm

Data collection

Bruker APEX CCD diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2003 ▶) T min = 0.984, T max = 0.994 15459 measured reflections 2866 independent reflections 2551 reflections with I > 2σ(I) R int = 0.045

Refinement

R[F 2 > 2σ(F 2)] = 0.046 wR(F 2) = 0.095 S = 1.16 2866 reflections 225 parameters 2 restraints H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.15 e Å−3 Δρmin = −0.17 e Å−3 Data collection: SMART (Bruker, 1998 ▶); cell refinement: SAINT (Bruker, 2003 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: Mercury (Macrae et al., 2008 ▶); software used to prepare material for publication: SHELXTL (Sheldrick, 2008 ▶) and publCIF (Westrip, 2010 ▶). Click here for additional data file. Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536812048647/hb6989sup1.cif Click here for additional data file. Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812048647/hb6989Isup2.hkl Click here for additional data file. Supplementary material file. DOI: 10.1107/S1600536812048647/hb6989Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C20H20O4F(000) = 688
Mr = 324.36Dx = 1.322 Mg m3
Orthorhombic, P212121Mo Kα radiation, λ = 0.71073 Å
Hall symbol: P 2ac 2abCell parameters from 2104 reflections
a = 6.4301 (4) Åθ = 3.3–21.0°
b = 12.0307 (7) ŵ = 0.09 mm1
c = 21.0690 (13) ÅT = 293 K
V = 1629.87 (17) Å3Block, colourless
Z = 40.22 × 0.14 × 0.07 mm
Bruker APEX CCD diffractometer2866 independent reflections
Radiation source: fine-focus sealed tube2551 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.045
Frames, each covering 0.3 ° in ω scansθmax = 25.0°, θmin = 1.9°
Absorption correction: multi-scan (SADABS; Bruker, 2003)h = −7→7
Tmin = 0.984, Tmax = 0.994k = −14→14
15459 measured reflectionsl = −25→25
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.046Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.095H atoms treated by a mixture of independent and constrained refinement
S = 1.16w = 1/[σ2(Fo2) + (0.0365P)2 + 0.2296P] where P = (Fo2 + 2Fc2)/3
2866 reflections(Δ/σ)max < 0.001
225 parametersΔρmax = 0.15 e Å3
2 restraintsΔρmin = −0.17 e Å3
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 > 2σ(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
O10.7767 (3)0.66156 (13)0.23880 (7)0.0443 (4)
O21.0695 (3)0.80853 (13)0.05050 (7)0.0477 (5)
C10.9085 (4)0.56254 (19)0.23598 (11)0.0417 (6)
C21.1009 (4)0.5878 (2)0.19907 (11)0.0458 (6)
H21.22210.54860.20800.055*
C31.1042 (4)0.6644 (2)0.15409 (11)0.0424 (6)
H31.22430.67540.13030.051*
C40.9211 (4)0.73112 (18)0.14167 (10)0.0326 (5)
C50.7586 (4)0.72632 (18)0.18500 (10)0.0370 (6)
C60.5850 (4)0.7914 (2)0.17877 (12)0.0479 (6)
H60.47830.78760.20850.057*
C70.5712 (4)0.8631 (2)0.12745 (12)0.0466 (6)
H70.45300.90700.12300.056*
C80.7277 (4)0.87146 (18)0.08254 (11)0.0366 (5)
C90.9013 (4)0.80460 (18)0.09051 (10)0.0340 (5)
C101.0643 (4)0.88701 (19)−0.00121 (10)0.0431 (6)
H10A1.00190.8517−0.03800.052*
H10B1.20550.9076−0.01230.052*
C110.9426 (4)0.99118 (18)0.01485 (10)0.0357 (5)
H111.00171.02170.05400.043*
C120.7201 (4)0.95505 (19)0.02970 (12)0.0435 (6)
H12A0.63761.01880.04240.052*
H12B0.65670.9223−0.00760.052*
C130.9633 (4)1.07917 (18)−0.03561 (10)0.0353 (5)
C141.1391 (4)1.14759 (18)−0.03656 (10)0.0364 (6)
C151.1636 (4)1.23098 (19)−0.08114 (11)0.0378 (5)
H151.28111.2760−0.08020.045*
C161.0135 (4)1.24727 (18)−0.12703 (10)0.0372 (6)
C170.8386 (4)1.1812 (2)−0.12775 (11)0.0449 (6)
H170.73661.1918−0.15850.054*
C180.8159 (4)1.09882 (19)−0.08240 (11)0.0425 (6)
H180.69701.0549−0.08330.051*
C190.9574 (5)0.5352 (3)0.30460 (12)0.0639 (8)
H19A1.03680.59460.32300.096*
H19B1.03630.46750.30650.096*
H19C0.83000.52610.32780.096*
C200.7812 (6)0.4713 (2)0.20419 (15)0.0721 (9)
H20A0.65550.45930.22780.108*
H20B0.86080.40380.20310.108*
H20C0.74720.49340.16170.108*
O31.2858 (3)1.12753 (14)0.00917 (9)0.0536 (5)
H3A1.362 (4)1.1797 (18)0.0133 (14)0.064*
O41.0477 (3)1.33015 (16)−0.16975 (8)0.0551 (5)
H4A0.957 (4)1.334 (2)−0.1969 (11)0.066*
U11U22U33U12U13U23
O10.0529 (11)0.0443 (9)0.0356 (9)0.0025 (8)0.0083 (8)0.0037 (8)
O20.0485 (11)0.0493 (10)0.0452 (9)0.0166 (9)0.0169 (9)0.0160 (8)
C10.0460 (15)0.0360 (13)0.0431 (13)−0.0006 (11)0.0002 (13)0.0026 (11)
C20.0429 (16)0.0503 (15)0.0443 (14)0.0106 (13)0.0013 (12)0.0064 (12)
C30.0391 (14)0.0493 (14)0.0389 (13)0.0042 (12)0.0071 (12)0.0038 (12)
C40.0349 (12)0.0318 (11)0.0312 (11)−0.0027 (10)0.0009 (11)−0.0031 (10)
C50.0418 (14)0.0341 (12)0.0351 (12)−0.0048 (11)0.0001 (11)−0.0035 (10)
C60.0435 (15)0.0524 (15)0.0479 (14)0.0039 (13)0.0142 (13)0.0032 (12)
C70.0337 (14)0.0463 (14)0.0598 (15)0.0073 (12)0.0054 (13)0.0070 (13)
C80.0328 (13)0.0336 (12)0.0433 (13)−0.0014 (11)−0.0025 (12)−0.0027 (11)
C90.0347 (13)0.0339 (11)0.0335 (12)−0.0036 (10)0.0048 (11)−0.0061 (10)
C100.0521 (15)0.0446 (13)0.0326 (12)0.0064 (12)0.0058 (12)0.0053 (11)
C110.0381 (13)0.0372 (12)0.0319 (12)0.0005 (11)−0.0050 (11)−0.0018 (10)
C120.0403 (15)0.0419 (13)0.0482 (14)0.0067 (12)−0.0014 (12)0.0038 (12)
C130.0405 (14)0.0350 (12)0.0304 (12)0.0018 (11)−0.0035 (11)−0.0038 (10)
C140.0383 (14)0.0353 (12)0.0355 (12)0.0014 (11)−0.0093 (11)−0.0044 (11)
C150.0370 (14)0.0352 (12)0.0413 (12)−0.0063 (11)−0.0006 (11)−0.0031 (11)
C160.0463 (15)0.0352 (12)0.0302 (12)0.0006 (12)−0.0021 (11)−0.0016 (10)
C170.0506 (16)0.0469 (14)0.0372 (13)−0.0027 (13)−0.0152 (12)0.0017 (12)
C180.0447 (15)0.0426 (13)0.0402 (13)−0.0106 (12)−0.0083 (13)0.0005 (12)
C190.067 (2)0.076 (2)0.0484 (16)0.0029 (18)0.0022 (16)0.0185 (15)
C200.086 (2)0.0478 (16)0.082 (2)−0.0106 (18)−0.008 (2)−0.0059 (16)
O30.0471 (11)0.0522 (11)0.0616 (11)−0.0086 (9)−0.0261 (10)0.0097 (10)
O40.0654 (13)0.0539 (11)0.0462 (10)−0.0134 (11)−0.0119 (9)0.0168 (9)
O1—C51.380 (3)C11—C121.528 (3)
O1—C11.463 (3)C11—H110.9800
O2—C91.372 (3)C12—H12A0.9700
O2—C101.442 (2)C12—H12B0.9700
C1—C21.493 (4)C13—C181.388 (3)
C1—C191.516 (3)C13—C141.398 (3)
C1—C201.524 (4)C14—O31.369 (3)
C2—C31.321 (3)C14—C151.383 (3)
C2—H20.9300C15—C161.380 (3)
C3—C41.449 (3)C15—H150.9300
C3—H30.9300C16—O41.361 (3)
C4—C51.389 (3)C16—C171.377 (3)
C4—C91.400 (3)C17—C181.384 (3)
C5—C61.370 (3)C17—H170.9300
C6—C71.386 (3)C18—H180.9300
C6—H60.9300C19—H19A0.9600
C7—C81.385 (3)C19—H19B0.9600
C7—H70.9300C19—H19C0.9600
C8—C91.386 (3)C20—H20A0.9600
C8—C121.501 (3)C20—H20B0.9600
C10—C111.516 (3)C20—H20C0.9600
C10—H10A0.9700O3—H3A0.802 (17)
C10—H10B0.9700O4—H4A0.820 (17)
C11—C131.506 (3)
C5—O1—C1118.37 (17)C13—C11—H11107.3
C9—O2—C10117.92 (18)C10—C11—H11107.3
O1—C1—C2109.58 (18)C12—C11—H11107.3
O1—C1—C19105.0 (2)C8—C12—C11108.17 (19)
C2—C1—C19111.7 (2)C8—C12—H12A110.1
O1—C1—C20107.1 (2)C11—C12—H12A110.1
C2—C1—C20111.3 (2)C8—C12—H12B110.1
C19—C1—C20112.0 (2)C11—C12—H12B110.1
C3—C2—C1121.9 (2)H12A—C12—H12B108.4
C3—C2—H2119.0C18—C13—C14116.2 (2)
C1—C2—H2119.0C18—C13—C11124.1 (2)
C2—C3—C4120.2 (2)C14—C13—C11119.7 (2)
C2—C3—H3119.9O3—C14—C15121.8 (2)
C4—C3—H3119.9O3—C14—C13116.3 (2)
C5—C4—C9117.7 (2)C15—C14—C13121.9 (2)
C5—C4—C3118.02 (19)C16—C15—C14119.9 (2)
C9—C4—C3124.2 (2)C16—C15—H15120.0
C6—C5—O1118.1 (2)C14—C15—H15120.0
C6—C5—C4121.8 (2)O4—C16—C17123.2 (2)
O1—C5—C4120.0 (2)O4—C16—C15117.0 (2)
C5—C6—C7118.9 (2)C17—C16—C15119.8 (2)
C5—C6—H6120.6C16—C17—C18119.5 (2)
C7—C6—H6120.6C16—C17—H17120.3
C8—C7—C6122.1 (2)C18—C17—H17120.3
C8—C7—H7118.9C17—C18—C13122.7 (2)
C6—C7—H7118.9C17—C18—H18118.7
C7—C8—C9117.4 (2)C13—C18—H18118.7
C7—C8—C12122.1 (2)C1—C19—H19A109.5
C9—C8—C12120.3 (2)C1—C19—H19B109.5
O2—C9—C8122.7 (2)H19A—C19—H19B109.5
O2—C9—C4115.1 (2)C1—C19—H19C109.5
C8—C9—C4122.2 (2)H19A—C19—H19C109.5
O2—C10—C11112.64 (17)H19B—C19—H19C109.5
O2—C10—H10A109.1C1—C20—H20A109.5
C11—C10—H10A109.1C1—C20—H20B109.5
O2—C10—H10B109.1H20A—C20—H20B109.5
C11—C10—H10B109.1C1—C20—H20C109.5
H10A—C10—H10B107.8H20A—C20—H20C109.5
C13—C11—C10112.19 (18)H20B—C20—H20C109.5
C13—C11—C12115.3 (2)C14—O3—H3A111 (2)
C10—C11—C12107.10 (19)C16—O4—H4A113 (2)
C5—O1—C1—C240.3 (3)C3—C4—C9—O21.3 (3)
C5—O1—C1—C19160.4 (2)C5—C4—C9—C80.3 (3)
C5—O1—C1—C20−80.5 (3)C3—C4—C9—C8−176.3 (2)
O1—C1—C2—C3−28.0 (3)C9—O2—C10—C1131.4 (3)
C19—C1—C2—C3−143.8 (3)O2—C10—C11—C13171.8 (2)
C20—C1—C2—C390.2 (3)O2—C10—C11—C12−60.7 (3)
C1—C2—C3—C43.5 (4)C7—C8—C12—C11147.1 (2)
C2—C3—C4—C511.3 (3)C9—C8—C12—C11−28.3 (3)
C2—C3—C4—C9−172.2 (2)C13—C11—C12—C8−177.54 (18)
C1—O1—C5—C6156.1 (2)C10—C11—C12—C856.8 (2)
C1—O1—C5—C4−29.1 (3)C10—C11—C13—C1899.2 (3)
C9—C4—C5—C6−0.6 (3)C12—C11—C13—C18−23.7 (3)
C3—C4—C5—C6176.2 (2)C10—C11—C13—C14−81.4 (3)
C9—C4—C5—O1−175.14 (19)C12—C11—C13—C14155.7 (2)
C3—C4—C5—O11.7 (3)C18—C13—C14—O3−179.3 (2)
O1—C5—C6—C7175.3 (2)C11—C13—C14—O31.2 (3)
C4—C5—C6—C70.6 (4)C18—C13—C14—C150.7 (3)
C5—C6—C7—C8−0.4 (4)C11—C13—C14—C15−178.7 (2)
C6—C7—C8—C90.2 (4)O3—C14—C15—C16179.0 (2)
C6—C7—C8—C12−175.3 (2)C13—C14—C15—C16−1.1 (3)
C10—O2—C9—C80.9 (3)C14—C15—C16—O4−179.5 (2)
C10—O2—C9—C4−176.63 (19)C14—C15—C16—C170.8 (3)
C7—C8—C9—O2−177.5 (2)O4—C16—C17—C18−179.9 (2)
C12—C8—C9—O2−1.9 (3)C15—C16—C17—C18−0.2 (3)
C7—C8—C9—C4−0.2 (3)C16—C17—C18—C13−0.2 (4)
C12—C8—C9—C4175.5 (2)C14—C13—C18—C17−0.1 (3)
C5—C4—C9—O2177.88 (19)C11—C13—C18—C17179.3 (2)
D—H···AD—HH···AD···AD—H···A
O4—H4A···O1i0.82 (2)2.02 (2)2.841 (3)177 (3)
O3—H3A···Cg4ii0.80 (2)2.51 (2)3.213 (2)148 (3)
Table 1

Hydrogen-bond geometry (Å, °)

Cg4 is the centroid of the C13–C18 ring.

D—H⋯A D—HH⋯A DA D—H⋯A
O4—H4A⋯O1i 0.82 (2)2.02 (2)2.841 (3)177 (3)
O3—H3ACg4ii 0.80 (2)2.51 (2)3.213 (2)148 (3)

Symmetry codes: (i) ; (ii) .

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