Home Physical Sciences Crystal structure of 2-((2-(3-hydroxy-7-methylene-2,3-dihydro-7H-furo[3,2-g]chromen-2-yl)propan-2-yl)oxy)-6-(hydroxymethyl)tetrahydro-2H-pyran-3,4,5-triol – a marmesin derivative, C20H24O10
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Crystal structure of 2-((2-(3-hydroxy-7-methylene-2,3-dihydro-7H-furo[3,2-g]chromen-2-yl)propan-2-yl)oxy)-6-(hydroxymethyl)tetrahydro-2H-pyran-3,4,5-triol – a marmesin derivative, C20H24O10

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Published/Copyright: October 9, 2019

Abstract

C20H24O10, orthorhombic, P212121 (no. 19), a = 6.3728(6) Å, b = 14.3835(14) Å, c = 20.453(2) Å, V = 1874.8(3) Å3, Z = 4, Rgt(F) = 0.0272, wRref(F2) = 0.0558, T = 296(2) K.

CCDC no.: 1953796

The molecular structure is shown in the figure. Table 1 contains crystallographic data and Table 2 contains the list of the atoms including atomic coordinates and displacement parameters.

Table 1:

Data collection and handling.

Crystal:Colourless block
Size:0.20 × 0.14 × 0.12 mm
Wavelength:Mo Kα radiation (0.71073 Å)
μ:0.12 mm−1
Diffractometer, scan mode:Bruker APEX-II, φ and ω
θmax, completeness:25.5°, >99%
N(hkl)measured, N(hkl)unique, Rint:14542, 3489, 0.024
Criterion for Iobs, N(hkl)gt:Iobs > 2 σ(Iobs), 3289
N(param)refined:279
Programs:Bruker [1], SHELX [2]
Table 2:

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

AtomxyzUiso*/Ueq
C10.1698(3)0.77000(14)0.69654(10)0.0256(4)
C20.3758(3)0.74054(14)0.68935(10)0.0264(5)
C30.4296(3)0.68691(15)0.63636(10)0.0304(5)
H30.56660.66580.63150.036*
C40.2763(3)0.66415(15)0.58956(10)0.0294(5)
C50.0729(3)0.69661(16)0.59927(10)0.0290(5)
C60.0137(3)0.74979(15)0.65236(10)0.0302(5)
H6−0.12330.77070.65790.036*
C70.3181(4)0.61386(17)0.53044(12)0.0394(6)
H70.45250.59130.52260.047*
C80.1666(4)0.59902(18)0.48647(12)0.0418(6)
H80.19790.56640.44840.050*
C9−0.0434(4)0.63222(16)0.49657(11)0.0326(5)
C100.5027(3)0.77553(15)0.74706(10)0.0270(5)
H100.62450.80970.73030.032*
C110.3457(3)0.84631(15)0.77615(10)0.0262(5)
H110.37990.90600.75560.031*
C120.3363(3)0.86603(14)0.84979(10)0.0245(4)
C130.5537(4)0.89686(16)0.87190(12)0.0351(5)
H13A0.55090.91060.91780.053*
H13B0.59440.95150.84810.053*
H13C0.65280.84800.86370.053*
C140.1745(4)0.94127(15)0.86378(11)0.0331(5)
H14A0.03700.91850.85330.050*
H14B020460.99510.83760.050*
H14C0.17990.95770.90920.050*
C150.1161(3)0.73046(13)0.87739(10)0.0224(4)
H150.01010.76650.85370.027*
C160.0270(3)0.69138(14)0.94019(9)0.0236(4)
H160.13400.65400.96240.028*
C17−0.1600(3)0.63008(14)0.92266(9)0.0228(4)
H17−0.26560.66750.89990.027*
C18−0.0893(3)0.55166(14)0.87854(10)0.0225(4)
H180.00430.51050.90320.027*
C190.0284(3)0.58907(14)0.81909(10)0.0233(4)
H19−0.07100.62050.78990.028*
C200.1438(4)0.51497(16)0.78131(11)0.0322(5)
H20A0.04300.47040.76460.039*
H20B0.21310.54350.74410.039*
O1−0.0825(2)0.67877(11)0.55400(7)0.0358(4)
O2−0.1914(3)0.62388(11)0.45994(8)0.0409(4)
O30.1374(2)0.82156(10)0.75161(7)0.0268(3)
O40.5752(2)0.70322(11)0.78821(7)0.0337(4)
H40.47470.67700.80510.051*
O50.2937(2)0.78445(9)0.89029(6)0.0238(3)
O60.1875(2)0.65402(9)0.83914(7)0.0257(3)
O7−0.0345(2)0.76665(10)0.98124(7)0.0305(4)
H7A−0.08350.74611.01540.046*
O8−0.2503(2)0.59100(10)0.97984(7)0.0318(4)
H8A−0.33500.62770.99550.048*
O9−0.2630(2)0.49892(10)0.85508(7)0.0302(4)
H9−0.30170.46270.88360.045*
O100.2956(3)0.46716(11)0.81932(9)0.0431(4)
H10A0.39790.50080.82500.065*

Source of material

The aerial part of Clausena lansium Lour. Skeels (Rutaceae) were collected and identified by Prof. ZHANG Zhi-Yong (a botanist) of College of Agriculture, Jiangxi Agricultural University, Nanchang, China, in September, 2015. After being crushed into powder (11 kg), the plant material was extracted by refluxing 95% methanol (20 L each) three times. This process yielded methanol-soluble extracts, which were suspended in water and subsequently extracted with PE, EtOAc and n-BuOH (3.5 L, each), respectively. The n-BuOH part (130 g) was subjected to a reversed-phase column (RP-18) eluting with MeOH-water (10%–100%) to four sub-fractions (A–E). C was subjected to silica gel chromatography (CC) (200–300 mesh) with a gradient system of CH2Cl2-MeOH (9:1–7:3, v/v) to give six fractions C1–C6. C2 was further separated by normal phase silica gel CC (200–300 mesh) with an isocratic system of CH2Cl2-MeOH (9:1) to give four fractions C2-1– C2-4. C2-4 was separated by HPLC [H2O: MeOH (80:20, v/v)] to afford the title product (10 mg) which was then crystallized from methanol as colorless crystals.

Experimental details

All H atoms were included in calculated positions and refined as riding atoms, with Uiso(H) = 1.5 Ueq(C) for methyl H atoms and 1.2 Ueq(C) for all other H atoms. The Flack parameter is not conclusive, thus the absolute configuration can not be retrieved from this diffraction experiment.

Comment

C. lansium Lour. Skeels (Rutaceae), belonging to the genus Clausena of the family Rutaceae, is a fruit tree and a species of strongly scented evergreen tree growing in South China [3], [4]. Clausena lansium is famous for their fruits, which are very popular tropical, health-promoting fruits, while their roots, stems, leaves, and seeds have also been extensively applied in folk medicine or traditional Chinese medicine for the treatments of abdominal pain, malaria, cold, dermatopathy, and snake-bites [4], [5]. In our previous research, some coumarins [6], [7] were isolated from some plants of the genus Clausena. As a part of our ongoing project towards the discovery of new constituents from the Clausena genus, the title compound was extracted and characterized. The compound was obtained as colorless crystals with a blue fluorescence under ultraviolet irradiation (254 nm). It is a dihydrofuranocoumarin with H-2′ and H-3′ in cis orientation. In addition, the C-1′ position of this compound was glycosylated and the glycosyl is a β-glucose.

In the molecule of the title compound bond lengths and angles within the title structure are very similar to those given in the literature [8]. The molecule consists of two moieties: β-glucose and furocoumarin. The pyranose ring of sugar part adopts a chair conformation with all substituents in equatorial positions. The atoms C15, C17 and C19 are coplanar, the atoms C16, C18 and O6 are coplanar, and the dihedral angle of them is 4.15(7)°. The atoms of pyranose ring of furocoumarin part are coplanar. The furanose ring of the furocoumarin part adopts an envelope conformation. This moiety has two chiral centres, at C10 and C11, respectively. The molecular conformation is characterized by the O5-C12-C11-C10, O5-C12-C11-O3, C15-O5-C12-C11, and O6-C15-O5-C12 torsion angles of −58.2°, 68.5°, −54.6°, and 97.9°, respectively. This conformation is stabilized by intramolecular hydrogen bonds.

Award Identifier / Grant number: 31660094

Award Identifier / Grant number: 31660178

Funding source: NSFC-Jiangxi Province

Award Identifier / Grant number: 20181BAB204002

Funding source: National Key R&D Program of China

Award Identifier / Grant number: 2017YFD0301604

Funding source: Natural Science Foundation of Education Department of Jiangxi Province

Award Identifier / Grant number: GJJ160382

Funding statement: X-ray data were collected at Instrumental Analysis Center Nanchang Hangkong University, Nanchang, 330063, People’s Republic of China. This work was financially supported by the Funds of National Natural Science Foundation of China (No. 31660094, 31660178), NSFC-Jiangxi Province (No. 20181BAB204002), National Key R&D Program of China (2017YFD0301604) and Natural Science Foundation of Education Department of Jiangxi Province (No. GJJ160382).

References

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3. Editorial Committee of Flora of China, Chinese Academy of Sciences. Flora of China, Science Press: Beijing, China. 43 (1997) 126–127.Search in Google Scholar

4. Arbab, I. A.; Abdul, A. B.; Aspollah, M.; Abdullah, R.; Abdelwahab, S. I.; Ali, M. L. Z.: A review of traditional uses, phytochemical and pharmacological aspects of selected members of Clausena genus (Rutaceae). J. Med. Plants Res. 6 (2012) 5107–5118.10.5897/JMPR12.317Search in Google Scholar

5. Liu, Y. P.; Guo, J. M.; Liu, Y. Y.; Hu, S.; Yan, G.; Qiang, L.; Fu, Y. H.: Carbazole alkaloids with potential neuroprotective activities from the fruits of Clausena lansium. J. Agric. Food Chem. 67 (2019) 5764–5771.10.1021/acs.jafc.9b00961Search in Google Scholar

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Received: 2019-08-04
Accepted: 2019-09-16
Published Online: 2019-10-09
Published in Print: 2019-12-18

©2019 Yu-Yan Li et al., published by De Gruyter, Berlin/Boston

This work is licensed under the Creative Commons Attribution 4.0 Public License.

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  77. Crystal structure of 3-iodophthalic acid, C8H5IO4
  78. The crystal structure of tert-butyl (tert-butoxy(oxo)methyl)(5-bromo-2-fluorophenyl)carbamate, C16H21BrFNO4
  79. The crystal structure of bis(μ2-5,7-dichloroquinolin-8-olato-κ3N,O:O)-tetrakis(5,7-dichloroquinolin-8-olato-κ2N,O)bis(methanol-κ1O)dieuropium(III) — toluene (1/1), C63H39Cl12Eu2N6O8
  80. Crystal structure of dichlorido-(N′-(1-(3-ethylpyrazin-2-yl)ethylidene)-4-methoxybenzohydrazide-κ3N,N′,O)cadmium(II), C16H18N4O2Cl2Cd
  81. A redetermination of the crystal structure of catena-poly[(bis(O,O′-isopropyl dithiophosphato-κ2S,S′)-(μ2-1,2-bis(3-pyridylmethylene)hydrazine-κ2N,N′)cadmium(II)], {C24H38CdN4O4P2S4}n
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