Literature DB >> 23476241

(1R,3R,4R,6S)-4-(7-Meth-oxy-2-oxo-2H-chromen-6-yl)-1-methyl-3,6-dioxa-bicyclo-[3.1.0]hexan-2-yl acetate.

Wong Phakhodee1, Surat Laphookhieo, Timothy John Prior, Apinpus Rujiwatra.   

Abstract

In the title compound, C17H16O7, which was isolated from the leaves of Micromelum integerrimum, the furan ring adopts an envelope conformation with the O atom as the flap. An intra-molecular C-H⋯O hydrogen bond occurs. The carbonyl O atom is disordered in a 0.57 (8):0.43 (8) ratio. In the crystal, mol-ecules are linked by weak C-H⋯O hydrogen bonds into a C(10) chain along [010].

Entities:  

Year:  2012        PMID: 23476241      PMCID: PMC3589005          DOI: 10.1107/S1600536812047617

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


Related literature

Micromelum integerrimum is a shrub in the Rutacae family containing the coumarin mol­ecule, micromelin, as the major chemical constituent (Cassady et al., 1979 ▶). Many coumarins including micromelin have been extracted from Rutacae plants, and for some their cytotoxicity has been investigated (Sripisut et al., 2012 ▶; He et al., 2001 ▶). For previous reports on the isolation of micromelin (micromelumin) from a Northern Queensland collection, an Assamese collection, and a Northeast Thailand collection, see: Lamberton et al. (1967 ▶); Das et al. (1984 ▶); Siridechakorn et al. (2012 ▶). For detailed H1 NMR spectroscopic data, see: Das et al. (1984 ▶); Siridechakorn et al. (2012 ▶). For a phytochemical investigation, see: Siridechakorn et al. (2012 ▶). For a closely related micromelin structure, C15H12O6, see: Fun et al. (2011 ▶). For hydrogen-bond motifs, see: Bernstein et al. (1995 ▶). For puckering parameters, see: Cremer & Pople (1975 ▶).

Experimental

Crystal data

C17H16O7 M = 332.31 Monoclinic, a = 10.4825 (16) Å b = 6.9213 (9) Å c = 11.0212 (18) Å β = 95.970 (7)° V = 795.3 (2) Å3 Z = 2 Mo Kα radiation μ = 0.11 mm−1 T = 298 K 0.64 × 0.32 × 0.24 mm

Data collection

Bruker SMART APEXII CCD area-detector diffractometer Absorption correction: multi-scan (SADABS; Bruker, 1997 ▶) T min = 0.653, T max = 0.746 4381 measured reflections 2123 independent reflections 1692 reflections with I > 2σ(I) R int = 0.021

Refinement

R[F 2 > 2σ(F 2)] = 0.046 wR(F 2) = 0.136 S = 1.06 2123 reflections 223 parameters 2 restraints H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.47 e Å−3 Δρmin = −0.24 e Å−3 Data collection: APEX2 (Bruker, 2008 ▶); cell refinement: SAINT (Bruker, 1997 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: DIAMOND (Brandenburg, 2007 ▶); software used to prepare material for publication: publCIF (Westrip, 2010 ▶) and PLATON (Spek, 2009 ▶). Click here for additional data file. Crystal structure: contains datablock(s) I, global. DOI: 10.1107/S1600536812047617/bx2427sup1.cif Click here for additional data file. Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812047617/bx2427Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C17H16O7F(000) = 348
Mr = 332.31Dx = 1.388 Mg m3
Monoclinic, P21Mo Kα radiation, λ = 0.71073 Å
Hall symbol: P 2ybCell parameters from 3003 reflections
a = 10.4825 (16) Åθ = 1.9–28.3°
b = 6.9213 (9) ŵ = 0.11 mm1
c = 11.0212 (18) ÅT = 298 K
β = 95.970 (7)°Block, colourless
V = 795.3 (2) Å30.64 × 0.32 × 0.24 mm
Z = 2
Bruker SMART APEXII CCD area-detector diffractometer2123 independent reflections
Radiation source: fine-focus sealed tube1692 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.021
ω scansθmax = 28.3°, θmin = 2.6°
Absorption correction: multi-scan (SADABS; Bruker, 1997)h = −13→8
Tmin = 0.653, Tmax = 0.746k = −7→9
4381 measured reflectionsl = −14→14
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) = 0.136H atoms treated by a mixture of independent and constrained refinement
S = 1.06w = 1/[σ2(Fo2) + (0.0701P)2 + 0.1456P] where P = (Fo2 + 2Fc2)/3
2123 reflections(Δ/σ)max < 0.001
223 parametersΔρmax = 0.47 e Å3
2 restraintsΔρmin = −0.24 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 > 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*/UeqOcc. (<1)
O1−0.09274 (16)0.0334 (4)0.56547 (17)0.0485 (5)
C2−0.2211 (2)0.0363 (5)0.5224 (3)0.0509 (6)
O2−0.2958 (2)0.0392 (4)0.5982 (2)0.0701 (7)
C3−0.2509 (2)0.0355 (5)0.3921 (3)0.0542 (7)
H3−0.335 (3)0.0402 (6)0.3602 (13)0.065*
C4−0.1595 (2)0.0280 (5)0.3155 (3)0.0490 (6)
H4−0.1858 (8)0.0256 (5)0.219 (3)0.059*
C50.0765 (2)0.0093 (4)0.2907 (2)0.0434 (6)
H50.0579 (6)0.0024 (5)0.199 (3)0.052*
C60.2015 (2)0.0050 (4)0.3416 (2)0.0438 (6)
C70.2260 (2)0.0189 (4)0.4699 (2)0.0425 (5)
O30.35235 (16)0.0218 (4)0.51324 (18)0.0587 (6)
C160.3858 (3)0.0418 (6)0.6410 (3)0.0572 (7)
H16A0.34310.15260.67020.086*
H16B0.47690.05820.65720.086*
H16C0.3600−0.07190.68200.086*
C80.1272 (2)0.0280 (5)0.5436 (2)0.0423 (5)
H80.1452 (6)0.0344 (5)0.633 (3)0.051*
C90.0026 (2)0.0280 (4)0.4886 (2)0.0389 (5)
C10−0.0266 (2)0.0232 (4)0.3624 (2)0.0408 (5)
C110.3156 (3)−0.0214 (5)0.2692 (3)0.0502 (7)
H110.3788−0.10420.31590.060*
O110.2824 (2)−0.1069 (4)0.1510 (2)0.0606 (6)
C120.3783 (3)0.1663 (6)0.2434 (3)0.0563 (8)
H120.37740.27510.30030.068*
O120.48617 (19)0.1365 (5)0.1725 (2)0.0697 (7)
C130.3647 (3)0.1984 (6)0.1116 (3)0.0621 (8)
C140.2937 (3)0.0253 (6)0.0571 (3)0.0599 (8)
H140.3396−0.0323−0.00700.072*
O130.1675 (2)0.0904 (4)0.00763 (19)0.0656 (7)
C150.3633 (4)0.3895 (9)0.0470 (4)0.0931 (14)
H15A0.27620.42890.02480.140*
H15B0.40660.3773−0.02520.140*
H15C0.40620.48450.10000.140*
C170.1085 (3)−0.0092 (6)−0.0852 (3)0.0652 (9)
C18−0.0245 (4)0.0466 (8)−0.1189 (4)0.0793 (11)
H18A−0.0547−0.0112−0.19570.119*
H18B−0.03010.1847−0.12580.119*
H18C−0.07620.0031−0.05730.119*
O19A0.1483 (6)−0.1679 (10)−0.1149 (6)0.0843 (12)*0.567 (8)
O19B0.1763 (7)−0.0896 (14)−0.1535 (7)0.0843 (12)*0.433 (8)
U11U22U33U12U13U23
O10.0370 (8)0.0543 (11)0.0556 (10)0.0019 (10)0.0112 (7)0.0022 (11)
C20.0374 (12)0.0414 (14)0.0750 (18)0.0000 (13)0.0113 (12)0.0053 (16)
O20.0463 (10)0.0742 (16)0.0943 (16)−0.0031 (13)0.0283 (10)0.0057 (15)
C30.0318 (11)0.0494 (15)0.0794 (19)−0.0042 (14)−0.0037 (11)0.0071 (17)
C40.0404 (12)0.0459 (14)0.0585 (15)−0.0051 (14)−0.0054 (11)0.0033 (15)
C50.0440 (12)0.0436 (14)0.0424 (12)−0.0009 (12)0.0030 (10)0.0011 (12)
C60.0382 (11)0.0446 (15)0.0489 (13)0.0013 (12)0.0067 (10)−0.0025 (13)
C70.0328 (10)0.0427 (13)0.0513 (13)0.0040 (12)0.0007 (9)0.0008 (13)
O30.0323 (8)0.0833 (16)0.0599 (11)0.0021 (12)0.0015 (7)−0.0034 (13)
C160.0388 (12)0.0655 (19)0.0640 (16)0.0071 (15)−0.0103 (11)−0.0031 (17)
C80.0380 (11)0.0451 (13)0.0433 (12)0.0010 (13)0.0016 (9)−0.0007 (13)
C90.0344 (10)0.0341 (11)0.0486 (12)0.0009 (12)0.0059 (9)0.0029 (12)
C100.0354 (10)0.0373 (12)0.0491 (12)−0.0022 (12)0.0006 (9)0.0003 (12)
C110.0416 (13)0.0589 (18)0.0509 (14)0.0051 (13)0.0080 (11)−0.0103 (13)
O110.0620 (13)0.0600 (12)0.0615 (13)0.0007 (11)0.0147 (10)−0.0160 (11)
C120.0384 (13)0.075 (2)0.0578 (16)−0.0085 (15)0.0171 (12)−0.0156 (16)
O120.0379 (10)0.110 (2)0.0636 (13)−0.0054 (12)0.0170 (9)−0.0161 (14)
C130.0450 (15)0.082 (2)0.0624 (18)−0.0085 (17)0.0210 (13)−0.0089 (18)
C140.0442 (13)0.083 (2)0.0541 (15)0.0060 (18)0.0143 (11)−0.0172 (18)
O130.0501 (11)0.0877 (18)0.0588 (12)0.0055 (11)0.0046 (9)−0.0196 (12)
C150.081 (3)0.104 (3)0.099 (3)−0.023 (3)0.030 (2)0.021 (3)
C170.0663 (18)0.083 (3)0.0468 (14)0.0084 (18)0.0062 (13)−0.0103 (16)
C180.071 (2)0.092 (3)0.072 (2)−0.001 (2)−0.0103 (17)0.006 (2)
O1—C91.377 (3)C11—O111.441 (3)
O1—C21.380 (3)C11—C121.496 (5)
C2—O21.203 (3)C11—H110.9800
C2—C31.438 (4)O11—C141.396 (5)
C3—C41.343 (4)C12—O121.455 (3)
C3—H30.9168C12—C131.463 (4)
C4—C101.435 (3)C12—H120.9800
C4—H41.0676O12—C131.441 (4)
C5—C61.371 (3)C13—C151.501 (7)
C5—C101.406 (3)C13—C141.502 (5)
C5—H51.0053C14—O131.450 (4)
C6—C71.413 (4)C14—H140.9800
C6—C111.517 (3)O13—C171.332 (4)
C7—O31.361 (3)C15—H15A0.9600
C7—C81.383 (3)C15—H15B0.9600
O3—C161.422 (3)C15—H15C0.9600
C16—H16A0.9600C17—O19B1.222 (7)
C16—H16B0.9600C17—O19A1.231 (7)
C16—H16C0.9600C17—C181.456 (5)
C8—C91.382 (3)C18—H18A0.9600
C8—H80.9857C18—H18B0.9600
C9—C101.393 (4)C18—H18C0.9600
C9—O1—C2122.2 (2)C6—C11—H11108.7
O2—C2—O1116.3 (3)C14—O11—C11111.7 (3)
O2—C2—C3127.2 (3)O12—C12—C1359.20 (19)
O1—C2—C3116.5 (2)O12—C12—C11111.1 (3)
C4—C3—C2122.2 (2)C13—C12—C11108.8 (3)
C4—C3—H3118.9O12—C12—H12120.8
C2—C3—H3118.9C13—C12—H12120.8
C3—C4—C10120.3 (2)C11—C12—H12120.8
C3—C4—H4119.9C13—O12—C1260.65 (19)
C10—C4—H4119.9O12—C13—C1260.14 (19)
C6—C5—C10121.9 (2)O12—C13—C15116.6 (3)
C6—C5—H5119.0C12—C13—C15126.9 (4)
C10—C5—H5119.0O12—C13—C14109.0 (3)
C5—C6—C7118.4 (2)C12—C13—C14105.6 (3)
C5—C6—C11124.1 (2)C15—C13—C14122.2 (3)
C7—C6—C11117.6 (2)O11—C14—O13109.8 (2)
O3—C7—C8123.6 (2)O11—C14—C13107.6 (3)
O3—C7—C6115.0 (2)O13—C14—C13107.3 (3)
C8—C7—C6121.4 (2)O11—C14—H14110.7
C7—O3—C16118.7 (2)O13—C14—H14110.7
O3—C16—H16A109.5C13—C14—H14110.7
O3—C16—H16B109.5C17—O13—C14117.4 (3)
H16A—C16—H16B109.5C13—C15—H15A109.5
O3—C16—H16C109.5C13—C15—H15B109.5
H16A—C16—H16C109.5H15A—C15—H15B109.5
H16B—C16—H16C109.5C13—C15—H15C109.5
C9—C8—C7118.3 (2)H15A—C15—H15C109.5
C9—C8—H8120.9H15B—C15—H15C109.5
C7—C8—H8120.9O19B—C17—O13117.1 (4)
O1—C9—C8116.3 (2)O19A—C17—O13121.5 (4)
O1—C9—C10121.2 (2)O19B—C17—C18124.5 (4)
C8—C9—C10122.5 (2)O19A—C17—C18120.7 (4)
C9—C10—C5117.4 (2)O13—C17—C18114.4 (3)
C9—C10—C4117.6 (2)C17—C18—H18A109.5
C5—C10—C4125.0 (2)C17—C18—H18B109.5
O11—C11—C12104.7 (2)H18A—C18—H18B109.5
O11—C11—C6113.3 (2)C17—C18—H18C109.5
C12—C11—C6112.4 (2)H18A—C18—H18C109.5
O11—C11—H11108.7H18B—C18—H18C109.5
C12—C11—H11108.7
D—H···AD—HH···AD···AD—H···A
C4—H4···O19Ai1.07 (3)2.46 (2)3.064 (8)114 (1)
C5—H5···O131.01 (3)2.58 (3)3.403 (3)139 (1)
C12—H12···O2ii0.982.353.282 (5)158
C16—H16B···O2iii0.962.543.419 (4)153
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
C4—H4⋯O19A i 1.07 (3)2.46 (2)3.064 (8)114 (1)
C5—H5⋯O131.01 (3)2.58 (3)3.403 (3)139 (1)
C12—H12⋯O2ii 0.982.353.282 (5)158
C16—H16B⋯O2iii 0.962.543.419 (4)153

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.  An investigation of the antitumor activity of Micromelum integerrimum (Rutaceae).

Authors:  J M Cassady; N Ojima; C Chang; J L McLaughlin
Journal:  J Nat Prod       Date:  1979 May-Jun       Impact factor: 4.050

3.  Absolute configuration of micromelin.

Authors:  Hoong-Kun Fun; Ittipon Siridechakorn; Surat Laphookhieo; Suchada Chantrapromma
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-06-18

4.  Structure validation in chemical crystallography.

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

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