research communications
of tetrahydroseselin, an angular 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
In the title compound, tetrahydroseselin, C14H16O3, a pyranocoumarin [systematic name: 8,8-dimethyl-3,4,9,10-tetrahydro-2H,8H-pyrano[2,3-f]chromen-2-one] obtained from the hydrogenation of seselin in the presence of Pd/C in MeOH at room temperature, the dihedral angle between the central benzene ring and the best planes of the outer fused ring systems are 6.20 (7) and 10.02 (8)°. In the crystal, molecules show only very weak intermolecular C—H⋯O interactions.
Keywords: crystal structure; naturally occurring seselin; T. stictocarpum; tetrahydroseselin; Pd/C hydrogenation in MeOH.
CCDC reference: 1557474
1. Chemical context
The title molecule, tetrahydroseselin, a hydrogenated product of an angular pyranocoumarin, seselin, consists of three different kinds of fused rings: a central benzene ring, an outer pyrone ring and a pyrane ring with dimethyl substituents attached at C3. These pyranocoumarins have absorption bands in the near UV region resulting from the presence of conjugated double bonds in the enone system and exhibit photo-mutagenic and photo-carcinogenic properties (Appendino et al., 2004), which bind with the purine base of DNA in living cells to yield photo-adducts (Conforti et al., 2009). Based on this property, the molecules are used to treat numerous inflammatory skin diseases such as atopic dermatitis and pigment disorders like vitiligo and psoriasis, through exposure to UV radiation in photo dynamic therapy (PDT). Because of their strong ability to absorb UV radiation, these classes of molecules are utilized as photo-protective 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). Also, in vitro anti-proliferative activity and in vivo photo-toxicity against numerous cancer cell lines, e.g. HL60 and A431, has been observed (Conconi et al., 1998). In addition, this class of have been successfully used in the treatment of inhibited proliferation in the human hepatocellular carcinoma cell line (March et al., 1993). Experimental results have shown that its photo-toxicity is extended via a Diels–Alder reaction to bind the double bond of a purine base of DNA in the living cell with the double bonds of coumarin to yield mono [(2 + 2) cycloaddition] and diadducts [(4 + 2) cycloaddition] (Conforti et al., 2009). As a part of our studies in this area, we are looking at the role of double bonds in the photo-biological activity of the aforesaid molecule. The of the title compound tetrahydroseselin, C14H16O3, is reported herein.
2. Structural commentary
In the title compound, the three different fused rings comprising the molecule (Fig. 1), are the central benzene ring (C1/C5–C12), the outer pyrone ring (O2/C6–C7) and the dihydropyrane ring (O1/C1–C2), with dimethyl substituents attached at C3. The mean planes of these rings (O1/C1–C2 and O2/C6–C7) are inclined to the benzene plane by 6.20 (7) and 10.02 (8)°, respectively. The angles between the mean plane of the benzene ring and the four planar atoms of each pyran ring (O1/C1–C2) and (O2/C6–C10) are 3.0 (1)° (r.m.s. of the fitted atoms = 0.0092 Å) and 2.6 (1)° (r.m.s. of the fitted atoms = 0.0046 Å), respectively. Both rings are in half-chair conformations and atoms C2, C3, C7 and C8 deviate by 0.282, 0.446, 0.241 and 0.687 Å, respectively, from the plane through the other four essentially planar atoms of the respective pyran rings. These distortions of the dihydropyran rings are probably the result of the ring flexibility and the presence of the methyl substituents. Experimental results from the title compound reveal that the photo-biological activity of the parent compound seselin has been diminished due to the formation of distorted half-chair conformations of the pyran rings on hydrogenation. The C6—C5—C1—O1 and C11—C10—C6—O2 torsion angles are almost the same viz. 178.44 (12) and 178.73 (14)°, respectively, indicating that these rings are coplanar. The destruction of photo-biological activity and change of conformation of the pyran rings of the title molecule is considered to be due to the loss of the double bonds in seselin.
3. Supramolecular features
In the crystal, no formal hydrogen bonds are present but the molecules exhibit very weak intermolecular C—H⋯O interactions; none of these, however, can be considered as hydrogen bonds. Examples are: aromatic C8—H⋯O2i (ring) [3.221 (2) Å] and methylene C9—H⋯O3i (carbonyl) [3.412 (2) Å] interactions [symmetry code: (i) x, −y + , z − ], together with aromatic C12—H⋯O3ii (ring) [3.598 (3) Å] and methylene C8—H⋯O3ii (carbonyl) [3.593 (3) Å] interactions [symmetry code: (ii) x + 1, −y + , z − ], giving `ribbons' extending along a through very weak head-to-tail R44(8) ring motifs (Figs. 2 and 3). No π–π ring associations are present [minimum ring centroid separation = 4.654 (1) Å].
4. Synthesis and crystallization
The title compound was isolated as a colourless solid substance from the methanol extract of T. stictocarpum (in the local dialect, it is known as Aajmoda) by means of over SiO2 gel by with a binary mixed solvent system of hexane and ethyl acetate. It was purified by reverse phase high-pressure liquid chromatography (RP–HPLC) followed by crystallization to yield a colourless product. This compound was subjected to hydrogenation using Pd/C in a protic solvent (MeOH) at room temperature with continuous mechanical stirring overnight. The reaction product was worked up by the usual method to yield a crude product, which was was purified by over SiO2 gel with gradient solvent elution to yield the pure title compound. Suitable crystals for X-ray were obtained after recrystallization (×3) from ethyl acetate:hexane (1:4), by slow evaporation at room temperature. 1H NMR data (CDCl3, 200 MHz):δH 7.25 (d, 1H, J = 8.6 Hz, H-12), 6.68 (d, 1H, J = 8.6 Hz H-11), 2.40 (t, 1H, J = 6.6 Hz, H-4), 2.35 (t, 1H, J = 6.4 Hz, H-9), 2.26 (t, 2H, J = 6.4 Hz, H-8), 1.56 (t, 2H, J = 6.6 Hz, H-3), 1.50 (s, 3H, CH3, H-13), 1.54 (s, 3H, CH3, H-14).
5. 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 (psoralene class) structures. They include four reports, CSD refcodes AMYROL [Kato, 1970: seselin (Amyrolin)]; AMYROL01 [Bauri et al., 2006; seselin (redetermination)]; FUGVOS {Thailambal & Pattabhi, 1987: 2,3-dihydroxy-9-hydroxy-2(1-hydroxy-1-methylethyl)-7H-furo[3,2-g]-[1]-benzopyran-7-one; bromohydroxy-seselin (Bauri et al., 2017a); dibromomomethoxy-seselin (DMS) (Bauri et al., 2017b)}, and a number of structures with various substituents at C3 and C4, many of which are natural products.
6. Refinement
Crystal data, data collection and structure . All H atoms were located in difference-Fourier maps and the positional coordinates of all except the methyl H atoms were allowed to refine, with Uiso(H) = 1.2Ueq(C). Those on methyl groups were allowed to ride with C—H = 0.96 Å and with Uiso(H) = 1.2Ueq(C).
details are summarized in Table 1Supporting information
CCDC reference: 1557474
https://doi.org/10.1107/S205698901700932X/zs2379sup1.cif
contains datablock I. DOI:Structure factors: contains datablock I. DOI: https://doi.org/10.1107/S205698901700932X/zs2379Isup2.hkl
Supporting information file. DOI: https://doi.org/10.1107/S205698901700932X/zs2379Isup3.cml
Data collection: CAD-4-PC (Enraf–Nonius, 1996); cell
CAD-4-PC (Enraf–Nonius, 1996); data reduction: REDU4 (Stoe & Cie, 1987); 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).C14H16O3 | F(000) = 496 |
Mr = 232.27 | Dx = 1.263 Mg m−3 |
Monoclinic, P21/c | Cu Kα radiation, λ = 1.54180 Å |
Hall symbol: -P 2ybc | Cell parameters from 25 reflections |
a = 7.282 (1) Å | θ = 6.1–22.1° |
b = 18.445 (3) Å | µ = 0.71 mm−1 |
c = 9.144 (2) Å | T = 299 K |
β = 96.11 (3)° | Prism, colourless |
V = 1221.2 (4) Å3 | 0.50 × 0.50 × 0.40 mm |
Z = 4 |
Enraf–Nonius CAD-4 diffractometer | 1954 reflections with I > 2σ(I) |
Radiation source: fine-focus sealed tube | Rint = 0.096 |
Graphite monochromator | θmax = 67.1°, θmin = 4.8° |
ω/2θ scans | h = −8→8 |
Absorption correction: ψ scan (North et al., 1968) | k = −22→0 |
Tmin = 0.717, Tmax = 0.763 | l = −10→10 |
4924 measured reflections | 3 standard reflections every 120 min |
2187 independent reflections | intensity decay: 1.0% |
Refinement on F2 | Secondary atom site location: difference Fourier map |
Least-squares matrix: full | Hydrogen site location: inferred from neighbouring sites |
R[F2 > 2σ(F2)] = 0.058 | H atoms treated by a mixture of independent and constrained refinement |
wR(F2) = 0.151 | w = 1/[σ2(Fo2) + (0.0834P)2 + 0.1422P] where P = (Fo2 + 2Fc2)/3 |
S = 1.06 | (Δ/σ)max = 0.017 |
2187 reflections | Δρmax = 0.32 e Å−3 |
187 parameters | Δρmin = −0.21 e Å−3 |
0 restraints | Extinction correction: SHELXL97 (Sheldrick, 2008), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4 |
Primary atom site location: structure-invariant direct methods | Extinction coefficient: 0.089 (5) |
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 | ||
C1 | 0.20282 (18) | 0.18547 (7) | 0.29558 (16) | 0.0471 (4) | |
C2 | 0.3391 (2) | 0.07055 (8) | 0.2387 (2) | 0.0587 (5) | |
C3 | 0.2859 (2) | 0.04422 (8) | 0.3851 (2) | 0.0605 (5) | |
H3A | 0.288 (2) | −0.0078 (11) | 0.378 (2) | 0.073* | |
H3B | 0.382 (3) | 0.0604 (10) | 0.461 (2) | 0.073* | |
C4 | 0.0980 (2) | 0.07214 (8) | 0.4157 (2) | 0.0616 (5) | |
H4A | 0.077 (3) | 0.0653 (10) | 0.515 (3) | 0.074* | |
H4B | −0.002 (3) | 0.0455 (10) | 0.349 (2) | 0.074* | |
C5 | 0.08030 (19) | 0.15144 (7) | 0.37942 (16) | 0.0475 (4) | |
C6 | −0.05415 (18) | 0.19413 (8) | 0.43281 (16) | 0.0477 (4) | |
C7 | −0.3262 (2) | 0.18844 (9) | 0.56020 (19) | 0.0594 (5) | |
C8 | −0.3766 (2) | 0.26087 (10) | 0.4945 (3) | 0.0713 (5) | |
H8A | −0.433 (3) | 0.2557 (11) | 0.384 (3) | 0.086* | |
H8B | −0.459 (3) | 0.2797 (12) | 0.563 (3) | 0.086* | |
C9 | −0.2123 (2) | 0.30853 (9) | 0.4840 (2) | 0.0641 (5) | |
H9A | −0.162 (3) | 0.3240 (11) | 0.594 (2) | 0.077* | |
H9B | −0.251 (3) | 0.3509 (12) | 0.429 (2) | 0.077* | |
C10 | −0.0687 (2) | 0.26811 (7) | 0.41073 (18) | 0.0515 (4) | |
C11 | 0.0569 (2) | 0.29965 (7) | 0.32680 (18) | 0.0534 (4) | |
H11 | 0.050 (3) | 0.3510 (10) | 0.306 (2) | 0.064* | |
C12 | 0.1899 (2) | 0.25945 (8) | 0.26732 (18) | 0.0522 (4) | |
H12 | 0.277 (2) | 0.2804 (10) | 0.212 (2) | 0.063* | |
C13 | 0.2047 (3) | 0.04668 (11) | 0.1106 (2) | 0.0818 (6) | |
H13A | 0.2463 | 0.0636 | 0.0205 | 0.098* | |
H13B | 0.0849 | 0.0665 | 0.1210 | 0.098* | |
H13C | 0.1975 | −0.0053 | 0.1090 | 0.098* | |
C14 | 0.5356 (3) | 0.04849 (10) | 0.2193 (3) | 0.0811 (6) | |
H14A | 0.5689 | 0.0674 | 0.1280 | 0.097* | |
H14B | 0.5444 | −0.0034 | 0.2187 | 0.097* | |
H14C | 0.6178 | 0.0676 | 0.2991 | 0.097* | |
O1 | 0.34407 (14) | 0.14972 (5) | 0.23956 (13) | 0.0580 (4) | |
O2 | −0.17164 (15) | 0.15694 (6) | 0.51821 (13) | 0.0586 (4) | |
O3 | −0.41482 (18) | 0.15412 (7) | 0.63843 (17) | 0.0787 (5) |
U11 | U22 | U33 | U12 | U13 | U23 | |
C1 | 0.0422 (7) | 0.0445 (7) | 0.0554 (8) | 0.0013 (5) | 0.0087 (6) | 0.0009 (5) |
C2 | 0.0557 (9) | 0.0461 (8) | 0.0758 (11) | 0.0064 (6) | 0.0141 (7) | −0.0035 (6) |
C3 | 0.0594 (9) | 0.0438 (8) | 0.0792 (11) | 0.0069 (6) | 0.0112 (8) | 0.0050 (7) |
C4 | 0.0626 (9) | 0.0441 (8) | 0.0818 (11) | 0.0018 (7) | 0.0247 (8) | 0.0087 (7) |
C5 | 0.0455 (8) | 0.0411 (7) | 0.0567 (8) | −0.0012 (5) | 0.0088 (6) | 0.0012 (5) |
C6 | 0.0449 (7) | 0.0455 (8) | 0.0538 (8) | −0.0038 (5) | 0.0108 (6) | 0.0005 (5) |
C7 | 0.0495 (8) | 0.0620 (9) | 0.0695 (10) | −0.0067 (7) | 0.0189 (7) | −0.0109 (7) |
C8 | 0.0554 (9) | 0.0700 (11) | 0.0916 (14) | 0.0063 (8) | 0.0220 (9) | −0.0059 (9) |
C9 | 0.0628 (10) | 0.0520 (9) | 0.0798 (12) | 0.0073 (7) | 0.0185 (8) | −0.0052 (8) |
C10 | 0.0498 (8) | 0.0440 (7) | 0.0613 (8) | 0.0017 (6) | 0.0086 (7) | −0.0032 (6) |
C11 | 0.0547 (8) | 0.0388 (7) | 0.0675 (9) | 0.0004 (6) | 0.0093 (7) | 0.0035 (6) |
C12 | 0.0496 (8) | 0.0457 (8) | 0.0627 (9) | −0.0036 (6) | 0.0130 (7) | 0.0063 (6) |
C13 | 0.0920 (14) | 0.0689 (11) | 0.0833 (13) | 0.0066 (9) | 0.0041 (11) | −0.0151 (9) |
C14 | 0.0697 (11) | 0.0674 (11) | 0.1112 (16) | 0.0190 (8) | 0.0325 (11) | 0.0012 (10) |
O1 | 0.0528 (6) | 0.0465 (6) | 0.0784 (8) | 0.0039 (4) | 0.0251 (5) | 0.0034 (4) |
O2 | 0.0566 (7) | 0.0509 (6) | 0.0723 (7) | −0.0033 (4) | 0.0259 (6) | 0.0017 (5) |
O3 | 0.0724 (8) | 0.0745 (8) | 0.0967 (10) | −0.0108 (6) | 0.0430 (7) | −0.0049 (6) |
C1—O1 | 1.3665 (17) | C7—C8 | 1.495 (3) |
C1—C5 | 1.3869 (19) | C8—C9 | 1.496 (3) |
C1—C12 | 1.390 (2) | C8—H8A | 1.05 (2) |
C2—O1 | 1.4608 (17) | C8—H8B | 0.98 (2) |
C2—C13 | 1.510 (3) | C9—C10 | 1.499 (2) |
C2—C3 | 1.513 (3) | C9—H9A | 1.08 (2) |
C2—C14 | 1.516 (2) | C9—H9B | 0.95 (2) |
C3—C4 | 1.516 (2) | C10—C11 | 1.384 (2) |
C3—H3A | 0.96 (2) | C11—C12 | 1.377 (2) |
C3—H3B | 0.98 (2) | C11—H11 | 0.967 (18) |
C4—C5 | 1.5025 (19) | C12—H12 | 0.936 (19) |
C4—H4A | 0.95 (2) | C13—H13A | 0.9600 |
C4—H4B | 1.03 (2) | C13—H13B | 0.9600 |
C5—C6 | 1.385 (2) | C13—H13C | 0.9600 |
C6—C10 | 1.382 (2) | C14—H14A | 0.9600 |
C6—O2 | 1.3980 (17) | C14—H14B | 0.9600 |
C7—O3 | 1.195 (2) | C14—H14C | 0.9600 |
C7—O2 | 1.3576 (19) | ||
O1—C1—C5 | 122.89 (13) | C7—C8—H8B | 101.7 (13) |
O1—C1—C12 | 116.28 (12) | C9—C8—H8B | 112.6 (13) |
C5—C1—C12 | 120.81 (13) | H8A—C8—H8B | 116.1 (17) |
O1—C2—C13 | 108.01 (14) | C8—C9—C10 | 109.71 (14) |
O1—C2—C3 | 108.93 (13) | C8—C9—H9A | 106.9 (11) |
C13—C2—C3 | 112.76 (16) | C10—C9—H9A | 111.5 (11) |
O1—C2—C14 | 104.25 (13) | C8—C9—H9B | 108.9 (12) |
C13—C2—C14 | 111.91 (17) | C10—C9—H9B | 110.6 (13) |
C3—C2—C14 | 110.55 (16) | H9A—C9—H9B | 109.1 (16) |
C2—C3—C4 | 112.07 (14) | C6—C10—C11 | 116.82 (13) |
C2—C3—H3A | 104.6 (12) | C6—C10—C9 | 118.19 (14) |
C4—C3—H3A | 111.9 (11) | C11—C10—C9 | 124.93 (13) |
C2—C3—H3B | 107.2 (12) | C12—C11—C10 | 121.81 (13) |
C4—C3—H3B | 111.0 (12) | C12—C11—H11 | 118.3 (12) |
H3A—C3—H3B | 109.7 (15) | C10—C11—H11 | 119.9 (12) |
C5—C4—C3 | 110.34 (13) | C11—C12—C1 | 119.46 (13) |
C5—C4—H4A | 108.8 (11) | C11—C12—H12 | 122.5 (11) |
C3—C4—H4A | 111.9 (12) | C1—C12—H12 | 118.0 (11) |
C5—C4—H4B | 107.2 (11) | C2—C13—H13A | 109.5 |
C3—C4—H4B | 108.8 (11) | C2—C13—H13B | 109.5 |
H4A—C4—H4B | 109.6 (16) | H13A—C13—H13B | 109.5 |
C6—C5—C1 | 117.26 (13) | C2—C13—H13C | 109.5 |
C6—C5—C4 | 121.51 (13) | H13A—C13—H13C | 109.5 |
C1—C5—C4 | 121.18 (13) | H13B—C13—H13C | 109.5 |
C10—C6—C5 | 123.78 (13) | C2—C14—H14A | 109.5 |
C10—C6—O2 | 121.60 (13) | C2—C14—H14B | 109.5 |
C5—C6—O2 | 114.55 (12) | H14A—C14—H14B | 109.5 |
O3—C7—O2 | 117.36 (16) | C2—C14—H14C | 109.5 |
O3—C7—C8 | 126.07 (15) | H14A—C14—H14C | 109.5 |
O2—C7—C8 | 116.39 (14) | H14B—C14—H14C | 109.5 |
C7—C8—C9 | 112.78 (15) | C1—O1—C2 | 117.74 (11) |
C7—C8—H8A | 111.0 (11) | C7—O2—C6 | 121.53 (13) |
C9—C8—H8A | 103.2 (12) | ||
O1—C2—C3—C4 | 59.85 (19) | C5—C6—C10—C9 | −175.60 (15) |
C13—C2—C3—C4 | −60.04 (19) | O2—C6—C10—C9 | 1.4 (2) |
C14—C2—C3—C4 | 173.83 (14) | C8—C9—C10—C6 | −32.6 (2) |
C2—C3—C4—C5 | −45.0 (2) | C8—C9—C10—C11 | 150.31 (17) |
O1—C1—C5—C6 | 178.44 (12) | C6—C10—C11—C12 | 0.3 (2) |
C12—C1—C5—C6 | 0.1 (2) | C9—C10—C11—C12 | 177.46 (14) |
O1—C1—C5—C4 | 0.9 (2) | C10—C11—C12—C1 | −2.0 (2) |
C12—C1—C5—C4 | −177.47 (15) | O1—C1—C12—C11 | −176.63 (14) |
C3—C4—C5—C6 | −162.49 (15) | C5—C1—C12—C11 | 1.8 (2) |
C3—C4—C5—C1 | 15.0 (2) | C5—C1—O1—C2 | 14.7 (2) |
C1—C5—C6—C10 | −2.0 (2) | C12—C1—O1—C2 | −166.94 (14) |
C4—C5—C6—C10 | 175.61 (15) | C13—C2—O1—C1 | 78.75 (18) |
C1—C5—C6—O2 | −179.11 (12) | C3—C2—O1—C1 | −44.04 (18) |
C4—C5—C6—O2 | −1.5 (2) | C14—C2—O1—C1 | −162.07 (15) |
O3—C7—C8—C9 | 144.78 (19) | O3—C7—O2—C6 | −176.80 (14) |
O2—C7—C8—C9 | −40.1 (2) | C8—C7—O2—C6 | 7.7 (2) |
C7—C8—C9—C10 | 50.8 (2) | C10—C6—O2—C7 | 12.6 (2) |
C5—C6—C10—C11 | 1.8 (2) | C5—C6—O2—C7 | −170.16 (12) |
O2—C6—C10—C11 | 178.73 (14) |
Acknowledgements
The authors thank Professor Dr Hartmut, FG Strukturforschung, Material-und Geowissenschaften, Technische Universität Darmstadt, Germany, for his kind cooperation for providing diffractometer time.
References
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