research communications
of dibromomethoxyseselin (DBMS), a photobiologically active pyranocoumarin
aBio-Organic Division, Bhabha Atomic Research Centre, Trombay, Mumbai 400 085, India, bInstitute of Materials Science, Darmstadt University of Technology, Alarich-Weiss-Strasse 2, D-64287 Darmstadt, Germany, and cDepartment of Applied Chemistry & Chemical Engineering, University of Dhaka, Dhaka-1000, Bangladesh
*Correspondence e-mail: mustafizacce@du.ac.bd
The title compound, C15H14Br2O4 [systematic name: rac-(9S,10R)-3,9-dibromo-10-methoxy-8,8-dimethyl-9,10-dihydropyrano[2,3-h]chromen-2(8H)-one], is a pyranocoumarin derivative formed by the bromination of seselin, which is a naturally occurring angular pyranocoumarin isolated from the Indian herb Trachyspermum stictocarpum. In the molecule, the benzopyran ring system is essentially planar, with a maximum deviation of 0.044 (2) Å for the O atom. The dihydropyran ring is in a half-chair conformation and the four essentially planar atoms of this ring form a dihedral angle of 4.6 (2)° with the benzopyran ring system. In the crystal, molecules are linked by weak C—H⋯O hydrogen bonds, forming chains propagating along [010]. In addition, π–π stacking interactions, with centroid–centroid distances of 3.902 (2) and 3.908 (2) Å, link the hydrogen-bonded chains into layers parallel to (001).
Keywords: crystal structure; dibromomethoxyseseline (DBMS); seseline: bromination; bromo product; π–π stacking; C—H⋯O interactions.
CCDC reference: 1545541
1. Chemical context
The title compound is a substituted product of seselin containing two bromine atoms and a methoxy group. This class of pyranocoumarins have an absorption band in the near-UV region due to the presence of extended conjugated double bonds and exhibit photomutagenic (Appendino et al., 2004) and photocarcinogenic properties to bind with the purin base of DNA in a living cell to yield photoadducts (Conforti et al., 2009). Based on the properties of these molecules, they are employed for the treatment of numerous inflammatory skin diseases such as atopic dermatitis and the pigment disorders vitiligo and psoriasis on exposure to ultra violet (UV) radiation in photodynamic therapy (PDT). It has also been found that as a result of their strong ability for absorption of UV radiation, they are utilized as photoprotective agents to prevent the absorption of harmful UV radiation by the skin in the form of a variety of sun-screening lotions widely used in dermatological applications in the cosmetic and pharmaceutical industries (Chen et al., 2007, 2009). In addition to these activities, antiproliferative activity and photo-toxicity of related coumarin molecules has been reported against numerous cancer cell lines such as HL60, A431 (Conconi et al., 1998). Inhibited proliferation in the human hepatocellular carcinoma cell line has also been reported (March et al., 1993). Recently, this type of molecule has been connected as a spacer with porphyrin moieties to obtain a scaffold-type macromolecule (molecular nanotweezers) and has been employed to study the interaction (host–guest interaction) with such as C60 and C70 (Banerjee et al., 2014; Ghosh et al., 2014) in supramolecular chemistry and material science. Molecular tweezers containing a coumarin moiety showed better and fluorescence absorption as a result of the presence of the extended conjugated enone of pyranocoumarin. As part of our ongoing studies in this area, we herein describe the synthesis and structure of the title molecule.
2. Structural commentary
The title molecule (Fig. 1) is composed of three different types of rings viz. benzene, pyran and dihydropyran. The benzopyran ring system C1/C5–C12/O2 is essentially planar with a maximum deviation of 0.044 (2) Å for atom O2. The dihydropyran ring C1–C5/O1 is in a half-chair conformation and atoms C2 and C3 deviate by −0.385 (4) and 0.280 (4) Å from the plane through the other four essentially planar atoms (mean deviation 0.003 Å), which makes a dihedral angle of 4.6 (2)° with the benzopyran ring system. The relative stereochemistry at atoms C3 and C4 is R/S and S/R.
3. Supramolecular features
In the crystal, molecules are linked by weak C—H⋯O hydrogen bonds (Table 1), forming chains propagating along [010] (Fig. 2). In addition, π–π stacking interactions with centroid–centroid distances Cg1⋯Cg1(2 − x, −y, 1 − z) of 3.902 (2) Å and Cg1⋯Cg2(1 − x, −y, 1 − z) of 3.908 (2) Å where Cg1 and Cg2 are the centroids of the C1/C5/C6/C10–C12 and O2/C6–C10 rings, respectively, link the hydrogen-bonded chains, forming layers parallel (001) (Fig. 3).
4. Database survey
A search of the Cambridge Structural Database (CSD, Version 5.38, update November, 2016; Groom et al., 2016) gave more than thirty five hits for both linear and angular pyranocoumarin (psoralen class) structures. They include closely related structures [CSD refcodes AMYROL (Kato, 1970), FUGVOS (Thailambal & Pattabhi, 1987), AMYROL01 (Bauri et al., 2006, 2017)] and a number of structures with various substituents at C3 and C4, many of which are natural products.
5. Synthesis and crystallization
The title compound is a colourless solid substance formed on bromination of the naturally occurring seseline isolated from the methanol extract of T. stictocarpum by means of over SiO2 gel with by using a mixture of the binary solvents hexane and ethyl acetate. The bromination was conducted using NBS in methanol at room temperature with continuous stirring by means of mechanical stirrer over a period of 12 h. The reaction product was worked up by the usual method to yield crude product, which was then purified by solvent elution to yield the title compound. A colourless prism-shaped crystal was obtained after recrystallization (×3) from ethyl acetate:hexane (1:4) at room temperature by slow evaporation of the solvents. NMR analysis: 1H NMR data (CDCl3, 200 MHz): δH 8.02 (s, 1H, H-9), 7.32 (d, 1H, J = 8.80 Hz, H-12), 6.82 (d, 1H, J = 8.80 Hz, H-11), 5.36 (d, 1H, J = 6.8 Hz, H-4), 4.26 (d, 1H, J = 6.8 Hz, H-3), 3.56 (s, 3H, –OCH3, H-13), 1.50 (s, 3H, CH3, H-13), 1.54 (s, 3H, CH3, H-14).
6. Refinement
Crystal data, data collection and structure . H atoms were included in calculated positions and treated as riding atoms with C—H = 0.93–0.98 Å with Uiso(H) = 1.2Ueq(C).
details are summarized in Table 2Supporting information
CCDC reference: 1545541
https://doi.org/10.1107/S2056989017006132/lh5842sup1.cif
contains datablock I. DOI:Structure factors: contains datablock I. DOI: https://doi.org/10.1107/S2056989017006132/lh5842Isup2.hkl
Supporting information file. DOI: https://doi.org/10.1107/S2056989017006132/lh5842Isup3.cml
Data collection: CrysAlis CCD (Oxford Diffraction, 2009); cell
CrysAlis RED (Oxford Diffraction, 2009); data reduction: CrysAlis RED (Oxford Diffraction, 2009); program(s) used to solve structure: SHELXS97 (Sheldrick, 2008); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008); molecular graphics: PLATON (Spek, 2009); software used to prepare material for publication: SHELXL97 (Sheldrick, 2008).C15H14Br2O4 | Z = 2 |
Mr = 418.08 | F(000) = 412 |
Triclinic, P1 | Dx = 1.831 Mg m−3 |
Hall symbol: -P 1 | Mo Kα radiation, λ = 0.71073 Å |
a = 7.119 (1) Å | Cell parameters from 2165 reflections |
b = 8.519 (1) Å | θ = 2.6–27.9° |
c = 13.366 (2) Å | µ = 5.36 mm−1 |
α = 105.34 (2)° | T = 299 K |
β = 90.45 (1)° | Prism, colourless |
γ = 103.38 (2)° | 0.20 × 0.20 × 0.16 mm |
V = 758.4 (2) Å3 |
Oxford Diffraction Xcalibur single-crystal X-ray diffractometer with a Sapphire CCD detector | 2764 independent reflections |
Radiation source: fine-focus sealed tube | 2144 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.015 |
Rotation method data acquisition using ω and phi scans. | θmax = 25.4°, θmin = 2.6° |
Absorption correction: multi-scan (CrysAlis RED; Oxford Diffraction, 2009) | h = −8→8 |
Tmin = 0.364, Tmax = 0.423 | k = −8→10 |
5172 measured reflections | l = −16→12 |
Refinement on F2 | Primary atom site location: structure-invariant direct methods |
Least-squares matrix: full | Secondary atom site location: difference Fourier map |
R[F2 > 2σ(F2)] = 0.035 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.116 | H-atom parameters constrained |
S = 0.85 | w = 1/[σ2(Fo2) + (0.1P)2] where P = (Fo2 + 2Fc2)/3 |
2764 reflections | (Δ/σ)max = 0.004 |
193 parameters | Δρmax = 0.46 e Å−3 |
0 restraints | Δρmin = −0.42 e Å−3 |
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell esds are taken into account individually in the estimation of esds in distances, angles and torsion angles; correlations between esds in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell esds is used for estimating esds 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 > 2sigma(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. |
x | y | z | Uiso*/Ueq | ||
Br1 | 1.17651 (6) | 0.02924 (6) | 0.16407 (4) | 0.04731 (18) | |
Br2 | 0.74960 (8) | 0.46658 (6) | 0.74871 (4) | 0.0602 (2) | |
O1 | 0.8143 (4) | −0.2513 (3) | 0.2144 (2) | 0.0405 (7) | |
O2 | 0.7746 (4) | 0.2766 (3) | 0.4357 (2) | 0.0399 (7) | |
O3 | 0.6525 (4) | 0.1428 (3) | 0.2086 (2) | 0.0416 (7) | |
O4 | 0.7816 (6) | 0.5300 (4) | 0.5337 (3) | 0.0694 (11) | |
C1 | 0.7877 (5) | −0.1487 (5) | 0.3085 (3) | 0.0322 (8) | |
C2 | 0.7930 (6) | −0.1956 (5) | 0.1231 (3) | 0.0407 (9) | |
C3 | 0.8945 (5) | −0.0109 (5) | 0.1422 (3) | 0.0345 (8) | |
H3 | 0.8663 | 0.0240 | 0.0807 | 0.041* | |
C4 | 0.8264 (5) | 0.1028 (5) | 0.2368 (3) | 0.0319 (8) | |
H4 | 0.9274 | 0.2070 | 0.2619 | 0.038* | |
C5 | 0.7908 (5) | 0.0188 (5) | 0.3224 (3) | 0.0305 (8) | |
C6 | 0.7703 (5) | 0.1103 (4) | 0.4232 (3) | 0.0299 (8) | |
C7 | 0.7715 (6) | 0.3884 (5) | 0.5309 (3) | 0.0437 (10) | |
C8 | 0.7530 (6) | 0.3147 (5) | 0.6187 (3) | 0.0357 (9) | |
C9 | 0.7392 (5) | 0.1528 (5) | 0.6078 (3) | 0.0352 (9) | |
H9 | 0.7232 | 0.1108 | 0.6656 | 0.042* | |
C10 | 0.7488 (5) | 0.0428 (5) | 0.5074 (3) | 0.0305 (8) | |
C11 | 0.7447 (5) | −0.1286 (5) | 0.4888 (3) | 0.0345 (9) | |
H11 | 0.7290 | −0.1781 | 0.5435 | 0.041* | |
C12 | 0.7636 (6) | −0.2230 (5) | 0.3909 (3) | 0.0355 (9) | |
H12 | 0.7605 | −0.3362 | 0.3790 | 0.043* | |
C13 | 0.5762 (7) | −0.2223 (6) | 0.0942 (4) | 0.0553 (12) | |
H13A | 0.5609 | −0.1819 | 0.0348 | 0.066* | |
H13B | 0.5182 | −0.1619 | 0.1518 | 0.066* | |
H13C | 0.5142 | −0.3397 | 0.0780 | 0.066* | |
C14 | 0.8775 (8) | −0.3121 (6) | 0.0381 (4) | 0.0590 (13) | |
H14A | 1.0133 | −0.2949 | 0.0553 | 0.071* | |
H14B | 0.8597 | −0.2880 | −0.0270 | 0.071* | |
H14C | 0.8128 | −0.4265 | 0.0325 | 0.071* | |
C15 | 0.6827 (8) | 0.2953 (7) | 0.1849 (5) | 0.0697 (16) | |
H15A | 0.7553 | 0.3827 | 0.2421 | 0.084* | |
H15B | 0.5602 | 0.3182 | 0.1723 | 0.084* | |
H15C | 0.7537 | 0.2904 | 0.1238 | 0.084* |
U11 | U22 | U33 | U12 | U13 | U23 | |
Br1 | 0.0397 (3) | 0.0566 (3) | 0.0543 (3) | 0.0166 (2) | 0.0127 (2) | 0.0253 (2) |
Br2 | 0.0801 (4) | 0.0457 (3) | 0.0433 (3) | 0.0097 (2) | 0.0166 (2) | −0.0031 (2) |
O1 | 0.0586 (18) | 0.0296 (14) | 0.0347 (15) | 0.0149 (13) | 0.0110 (13) | 0.0074 (12) |
O2 | 0.0640 (19) | 0.0262 (14) | 0.0344 (15) | 0.0166 (13) | 0.0096 (13) | 0.0114 (11) |
O3 | 0.0400 (15) | 0.0435 (17) | 0.0481 (17) | 0.0152 (13) | 0.0043 (13) | 0.0197 (14) |
O4 | 0.127 (3) | 0.0293 (18) | 0.060 (2) | 0.0305 (19) | 0.021 (2) | 0.0158 (15) |
C1 | 0.0314 (19) | 0.031 (2) | 0.036 (2) | 0.0078 (16) | 0.0052 (16) | 0.0104 (17) |
C2 | 0.051 (2) | 0.039 (2) | 0.031 (2) | 0.0126 (19) | 0.0068 (18) | 0.0062 (17) |
C3 | 0.036 (2) | 0.040 (2) | 0.032 (2) | 0.0129 (17) | 0.0100 (16) | 0.0139 (17) |
C4 | 0.035 (2) | 0.031 (2) | 0.033 (2) | 0.0101 (16) | 0.0032 (16) | 0.0112 (16) |
C5 | 0.0319 (19) | 0.0293 (19) | 0.033 (2) | 0.0083 (16) | 0.0065 (15) | 0.0120 (16) |
C6 | 0.0313 (19) | 0.0245 (19) | 0.035 (2) | 0.0061 (15) | 0.0039 (16) | 0.0096 (15) |
C7 | 0.051 (3) | 0.038 (3) | 0.043 (2) | 0.016 (2) | 0.008 (2) | 0.0089 (19) |
C8 | 0.038 (2) | 0.034 (2) | 0.034 (2) | 0.0105 (17) | 0.0062 (17) | 0.0061 (16) |
C9 | 0.035 (2) | 0.040 (2) | 0.032 (2) | 0.0077 (17) | 0.0048 (16) | 0.0122 (17) |
C10 | 0.0287 (18) | 0.032 (2) | 0.032 (2) | 0.0075 (16) | 0.0067 (15) | 0.0103 (16) |
C11 | 0.036 (2) | 0.033 (2) | 0.039 (2) | 0.0070 (17) | 0.0029 (17) | 0.0181 (17) |
C12 | 0.042 (2) | 0.027 (2) | 0.041 (2) | 0.0099 (17) | 0.0039 (18) | 0.0131 (17) |
C13 | 0.055 (3) | 0.050 (3) | 0.048 (3) | −0.005 (2) | −0.001 (2) | 0.008 (2) |
C14 | 0.088 (4) | 0.041 (3) | 0.044 (3) | 0.019 (2) | 0.020 (3) | 0.002 (2) |
C15 | 0.068 (4) | 0.065 (4) | 0.091 (4) | 0.029 (3) | −0.003 (3) | 0.035 (3) |
Br1—C3 | 1.963 (4) | C6—C10 | 1.388 (5) |
Br2—C8 | 1.876 (4) | C7—C8 | 1.463 (6) |
O1—C1 | 1.371 (4) | C8—C9 | 1.328 (5) |
O1—C2 | 1.440 (5) | C9—C10 | 1.432 (5) |
O2—C6 | 1.375 (4) | C9—H9 | 0.9300 |
O2—C7 | 1.377 (5) | C10—C11 | 1.408 (5) |
O3—C15 | 1.386 (5) | C11—C12 | 1.369 (5) |
O3—C4 | 1.431 (4) | C11—H11 | 0.9300 |
O4—C7 | 1.183 (5) | C12—H12 | 0.9300 |
C1—C5 | 1.384 (5) | C13—H13A | 0.9600 |
C1—C12 | 1.401 (5) | C13—H13B | 0.9600 |
C2—C3 | 1.524 (6) | C13—H13C | 0.9600 |
C2—C14 | 1.526 (5) | C14—H14A | 0.9600 |
C2—C13 | 1.538 (6) | C14—H14B | 0.9600 |
C3—C4 | 1.533 (5) | C14—H14C | 0.9600 |
C3—H3 | 0.9800 | C15—H15A | 0.9600 |
C4—C5 | 1.496 (5) | C15—H15B | 0.9600 |
C4—H4 | 0.9800 | C15—H15C | 0.9600 |
C5—C6 | 1.394 (5) | ||
C1—O1—C2 | 117.6 (3) | C9—C8—C7 | 122.9 (4) |
C6—O2—C7 | 123.4 (3) | C9—C8—Br2 | 122.2 (3) |
C15—O3—C4 | 114.0 (3) | C7—C8—Br2 | 114.9 (3) |
O1—C1—C5 | 122.4 (3) | C8—C9—C10 | 120.1 (4) |
O1—C1—C12 | 115.6 (3) | C8—C9—H9 | 119.9 |
C5—C1—C12 | 122.0 (3) | C10—C9—H9 | 119.9 |
O1—C2—C3 | 111.0 (3) | C6—C10—C11 | 117.6 (3) |
O1—C2—C14 | 104.5 (3) | C6—C10—C9 | 118.1 (3) |
C3—C2—C14 | 113.4 (3) | C11—C10—C9 | 124.3 (3) |
O1—C2—C13 | 109.0 (3) | C12—C11—C10 | 120.4 (3) |
C3—C2—C13 | 109.7 (3) | C12—C11—H11 | 119.8 |
C14—C2—C13 | 109.1 (4) | C10—C11—H11 | 119.8 |
C2—C3—C4 | 113.0 (3) | C11—C12—C1 | 119.9 (3) |
C2—C3—Br1 | 112.1 (3) | C11—C12—H12 | 120.0 |
C4—C3—Br1 | 107.3 (3) | C1—C12—H12 | 120.0 |
C2—C3—H3 | 108.1 | C2—C13—H13A | 109.5 |
C4—C3—H3 | 108.1 | C2—C13—H13B | 109.5 |
Br1—C3—H3 | 108.1 | H13A—C13—H13B | 109.5 |
O3—C4—C5 | 109.4 (3) | C2—C13—H13C | 109.5 |
O3—C4—C3 | 110.3 (3) | H13A—C13—H13C | 109.5 |
C5—C4—C3 | 110.5 (3) | H13B—C13—H13C | 109.5 |
O3—C4—H4 | 108.8 | C2—C14—H14A | 109.5 |
C5—C4—H4 | 108.8 | C2—C14—H14B | 109.5 |
C3—C4—H4 | 108.8 | H14A—C14—H14B | 109.5 |
C1—C5—C6 | 116.3 (3) | C2—C14—H14C | 109.5 |
C1—C5—C4 | 122.9 (3) | H14A—C14—H14C | 109.5 |
C6—C5—C4 | 120.7 (3) | H14B—C14—H14C | 109.5 |
O2—C6—C10 | 120.6 (3) | O3—C15—H15A | 109.5 |
O2—C6—C5 | 115.6 (3) | O3—C15—H15B | 109.5 |
C10—C6—C5 | 123.8 (3) | H15A—C15—H15B | 109.5 |
O4—C7—O2 | 118.2 (4) | O3—C15—H15C | 109.5 |
O4—C7—C8 | 127.1 (4) | H15A—C15—H15C | 109.5 |
O2—C7—C8 | 114.7 (3) | H15B—C15—H15C | 109.5 |
C2—O1—C1—C5 | −16.8 (6) | C7—O2—C6—C10 | 4.5 (6) |
C2—O1—C1—C12 | 165.3 (3) | C7—O2—C6—C5 | −174.8 (3) |
C1—O1—C2—C3 | 44.2 (5) | C1—C5—C6—O2 | 179.7 (3) |
C1—O1—C2—C14 | 166.8 (3) | C4—C5—C6—O2 | 3.4 (5) |
C1—O1—C2—C13 | −76.7 (4) | C1—C5—C6—C10 | 0.4 (6) |
O1—C2—C3—C4 | −55.3 (4) | C4—C5—C6—C10 | −176.0 (3) |
C14—C2—C3—C4 | −172.6 (4) | C6—O2—C7—O4 | 177.8 (4) |
C13—C2—C3—C4 | 65.1 (4) | C6—O2—C7—C8 | −3.0 (6) |
O1—C2—C3—Br1 | 66.0 (3) | O4—C7—C8—C9 | 178.8 (5) |
C14—C2—C3—Br1 | −51.3 (4) | O2—C7—C8—C9 | −0.3 (6) |
C13—C2—C3—Br1 | −173.5 (3) | O4—C7—C8—Br2 | −1.1 (7) |
C15—O3—C4—C5 | 142.1 (4) | O2—C7—C8—Br2 | 179.8 (3) |
C15—O3—C4—C3 | −96.1 (4) | C7—C8—C9—C10 | 2.2 (6) |
C2—C3—C4—O3 | −83.3 (4) | Br2—C8—C9—C10 | −178.0 (3) |
Br1—C3—C4—O3 | 152.6 (2) | O2—C6—C10—C11 | 179.7 (3) |
C2—C3—C4—C5 | 37.8 (4) | C5—C6—C10—C11 | −1.0 (6) |
Br1—C3—C4—C5 | −86.2 (3) | O2—C6—C10—C9 | −2.5 (5) |
O1—C1—C5—C6 | −177.2 (3) | C5—C6—C10—C9 | 176.8 (3) |
C12—C1—C5—C6 | 0.5 (6) | C8—C9—C10—C6 | −0.8 (6) |
O1—C1—C5—C4 | −1.0 (6) | C8—C9—C10—C11 | 176.9 (4) |
C12—C1—C5—C4 | 176.8 (3) | C6—C10—C11—C12 | 0.7 (5) |
O3—C4—C5—C1 | 111.1 (4) | C9—C10—C11—C12 | −177.0 (4) |
C3—C4—C5—C1 | −10.6 (5) | C10—C11—C12—C1 | 0.1 (6) |
O3—C4—C5—C6 | −72.7 (4) | O1—C1—C12—C11 | 177.1 (3) |
C3—C4—C5—C6 | 165.6 (3) | C5—C1—C12—C11 | −0.8 (6) |
D—H···A | D—H | H···A | D···A | D—H···A |
C11—H11···O4i | 0.93 | 2.57 | 3.188 (6) | 124 |
Symmetry code: (i) x, y−1, z. |
Acknowledgements
The authors thank Professor Dr Hartmut, FG Strukturforschung, Material-und Geowissenschaften, Technische Universität Darmstadt, for his kind cooperation with the data collection and providing diffractometer time.
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