The crystal structure of (E)-3-((E)-3-(4-ethoxy-3-methoxyphenyl)-1-hydroxyallylidene) chroman-2,4-dione, C21H18O6
-
Suzana C. Janićević
, Vidoslav S. Dekić
, Biljana R. Dekić
, Emilija T. Pecev Marinković
, Niko S. Radulović
, Milica G. Bogdanović
and Marko V. Rodić
Abstract
C21H18O6, triclinic, P
The crystal structure of (E)-3-((E)-3-(4-ethoxy-3-methoxyphenyl)-1-hydroxyallylidene) chroman-2,4-dione is presented in the Figure. Table 1 provides the crystallographic data, while Table 2 lists the atoms along with their atomic coordinates and displacement parameters.

Data collection and handling.
Crystal: | Orange prism |
Size: | 0.47 × 0.15 × 0.05 mm |
Wavelength: | Cu Kα radiation (1.54184 Å) |
μ: | 0.86 mm−1 |
Diffractometer, scan mode: | Gemini S (Oxford Diffraction), ω |
θmax, completeness: | 71.9°, >99 % |
N(hkl)measured, N(hkl)unique, Rint: | 11,582, 3,313, 0.037 |
Criterion for Iobs, N(hkl)gt: | Iobs > 2σ(Iobs), 2,711 |
N(param)refined: | 250 |
Programs: | CrysAlisPRO, 1 SHELX, 2 , 3 PLATON 4 |
Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2).
Atom | x | y | z | Uiso*/Ueq |
---|---|---|---|---|
O1 | 0.26373 (18) | 0.70819 (13) | 0.86845 (8) | 0.0602 (3) |
O2 | 0.2553 (2) | 0.53547 (13) | 0.77192 (9) | 0.0678 (3) |
O3 | 0.12419 (17) | 1.04453 (12) | 0.65729 (8) | 0.0557 (3) |
O4 | 0.14091 (17) | 0.86308 (12) | 0.53843 (8) | 0.0548 (3) |
H4 | 0.130 (4) | 0.953 (3) | 0.583 (2) | 0.122 (10)* |
O5 | 0.24167 (19) | 0.31571 (11) | 0.17054 (8) | 0.0582 (3) |
O6 | 0.321 (15) | 0.05743 (10) | 0.26467 (7) | 0.0490 (3) |
C2 | 0.2402 (2) | 0.66694 (17) | 0.77696 (11) | 0.0500 (3) |
C3 | 0.19975 (19) | 0.78362 (16) | 0.69980 (10) | 0.0436 (3) |
C4 | 0.16871 (19) | 0.93618 (16) | 0.72158 (10) | 0.0447 (3) |
C4′ | 0.1915 (2) | 0.97158 (18) | 0.81951 (11) | 0.0485 (3) |
C5 | 0.1675 (2) | 1.1184 (2) | 0.84629 (13) | 0.0584 (4) |
H5 | 0.132310 | 1.198722 | 0.800924 | 0.070* |
C6 | 0.1960 (3) | 1.1437 (2) | 0.93970 (14) | 0.0675 (5) |
H6 | 0.179293 | 1.241616 | 0.957415 | 0.081* |
C7 | 0.2492 (3) | 1.0251 (2) | 1.00784 (13) | 0.0681 (5) |
H7 | 0.268985 | 1.043694 | 1.070749 | 0.082* |
C8 | 0.2730 (3) | 0.8802 (2) | 0.98301 (13) | 0.0647 (4) |
H8 | 0.308835 | 0.800238 | 1.028627 | 0.078* |
C8′ | 0.2428 (2) | 0.85469 (19) | 0.88864 (11) | 0.0524 (4) |
C9 | 0.18834 (19) | 0.75110 (16) | 0.60012 (11) | 0.0444 (3) |
C10 | 0.2306 (2) | 0.60057 (17) | 0.56356 (11) | 0.0469 (3) |
H10 | 0.271504 | 0.516090 | 0.605324 | 0.056* |
C11 | 0.2108 (2) | 0.58292 (17) | 0.46991 (11) | 0.0472 (3) |
H11 | 0.169091 | 0.671376 | 0.431655 | 0.057* |
C12 | 0.24665 (19) | 0.44193 (16) | 0.42081 (11) | 0.0443 (3) |
C13 | 0.2254 (2) | 0.44822 (16) | 0.32027 (11) | 0.0464 (3) |
H13 | 0.190514 | 0.541941 | 0.287236 | 0.056* |
C14 | 0.2546 (2) | 0.31961 (16) | 0.26875 (10) | 0.0434 (3) |
C15 | 0.30254 (19) | 0.17798 (15) | 0.31929 (10) | 0.0421 (3) |
C16 | 0.3243 (2) | 0.17098 (16) | 0.41879 (11) | 0.0474 (3) |
H16 | 0.357210 | 0.077651 | 0.452321 | 0.057* |
C17 | 0.2978 (2) | 0.30107 (17) | 0.46894 (11) | 0.0482 (3) |
H17 | 0.314339 | 0.293961 | 0.535489 | 0.058* |
C18 | 0.2124 (4) | 0.4547 (2) | 0.11566 (14) | 0.0791 (6) |
H18A | 0.228927 | 0.435567 | 0.046462 | 0.119* |
H18B | 0.307867 | 0.499006 | 0.128861 | 0.119* |
H18C | 0.080710 | 0.523295 | 0.134654 | 0.119* |
C19 | 0.3832 (2) | −0.09025 (16) | 0.31191 (12) | 0.0505 (3) |
H19A | 0.292204 | −0.092990 | 0.370696 | 0.061* |
H19B | 0.515258 | −0.114294 | 0.330931 | 0.061* |
C20 | 0.3828 (3) | −0.20250 (17) | 0.23895 (13) | 0.0587 (4) |
H20A | 0.250577 | −0.179521 | 0.222362 | 0.088* |
H20B | 0.427211 | −0.303074 | 0.267506 | 0.088* |
H20C | 0.470343 | −0.196606 | 0.180379 | 0.088* |
1 Source of material
The synthesis was performed in two reaction steps. First, 3-acetyl-4-hydroxycoumarin was obtained through the acetylation of 4-hydroxycoumarin, following a previously published method. 5 The final product was synthesized by condensing 3-acetyl-4-hydroxycoumarin and 4-ethoxy-3-methoxybenzaldehyde. The reaction was conducted in chloroform with a catalytic amount of piperidine. The resulting product was purified using silica gel column chromatography with a hexane/ethyl acetate solvent system (1.5:1, v/v) and dissolved in acetone. Crystals were formed by slow evaporation of the solvent.
2 Experimental details
All hydrogen atoms bonded to carbon were refined in idealized positions using the riding model, with Uiso = nUeq (n = 1.5 for methyl groups and n = 1.2 for other hydrogen atoms) while the hydrogen atom associated with O4 was refined freely.
3 Comment
Naturally and synthetically derived hybrid molecules integrate two or more pharmacophoric units into one molecular scaffold. These structures are promising candidates for developing therapeutic agents due to their ability to exhibit diverse modes of action. 6 Coumarins and chalcones are two important classes of natural products recognized for their wide range of pharmacological activities. 7 , 8 , 9 , 10 , 11 , 12 , 13 These compounds are excellent building blocks for synthesizing the coumarin–chalcone hybrid scaffolds, which may serve as potent bioactive agents. 14 4-Hydroxycoumarin occurs as the structural core of many natural products. At the same time, its chemical properties make it particularly interesting for chemical transformations. 15 The acetylation of 4-hydroxycoumarin produces 3-acetyl-4-hydroxycoumarin, an excellent precursor for synthesizing targeted coumarin–chalcone hybrids via Claisen–Schmidt condensation with aromatic aldehydes. Here, we report the crystal structure of one such compound.
The structure exhibits prototropic tautomerism, where a hydrogen atom migrates from the hydroxyl group O3 to the adjacent keto group O4. Similar behavior has been previously reported in 3-(1-(2-(4-hydroxy-3,5-dimethoxybenzylidene)hydrazinyl)ethylidene)chroman-2,4-dione dihydrate, 16 3-(1-(2-((5-methylthiophen-2-yl)methylene)hydrazinyl)ethylidene)chroman-2,4-dione, 17 and (Z)-3-(1-(2-((E)-4-isopropylbenzylidene)hydrazinyl)ethylidene) chroman-2,4-dione, 18 where the hydrogen atom migrates from the hydroxyl group to a neighboring nitrogen atom.
The electron delocalization is evident in the O3–C4–C3–C9–O4 fragment, a feature characteristic of keto-enol tautomerism, where two oxygen atoms are bridged by resonance-assisted hydrogen bond. The formally double C4–O3 bond and formally single C9–O4 bond exhibit comparable lengths (1.2804(18) and 1.2817(18) Å, respectively), which are longer than typical C=O double bonds in cyclohexanones (1.211 Å), and shorter than C–OH single bonds in enols (1.333 Å). 19 Furthermore, the C3–C4 bond (1.418(2) Å) is shorter than typical Csp2–Csp2 single bonds (1.465 Å), while the C3–C9 bond (1.4383(19) Å) is longer than the expected Csp2=Csp2 double bond in enol tautomers (1.362 Å). 19 Geometrical parameters of the O4–H4⋯O3 hydrogen bond are as follows: d(D–H) = 1.05(3) Å, d(H⋯A) = 1.36(3) Å, d(D⋯A) = 2.3995(14) Å, α(D–H⋯A) = 167(3)°.
Intermolecular interaction energies were calculated using the CE-B3LYP model 20 via CrystalExplorer 21 revealing that two strongest interactions occur between the reference molecule and two neighbors stacked along crystallographic axis a. The dimer comprising the reference molecule and neighboring molecule, related by the symmetry operation 1 − x, 1 − y, 1 − z exhibits an interaction energy of Eint = −88 kJ mol−1, while the interaction with the neighboring molecule described by the symmetry operation −x, 1 − y, 1 − z has Eint = −86 kJ mol−1. Distances between mean molecular planes are approximately 3.4 Å, with the molecules stacking in such a way that virtually all atoms are separated by slightly more than their van der Waals contact distances.
Three rings are involved in stacking interactions (Cg⋯Cg distance less than 4.5 Å): Ω(1) – O3–C4–C3–C9–O4–H4; Ω(2) – O1–C2–C3–C4–C4′–C8′, and Ω(3) – C12–C13–C14–C15–C16–C17. Dimer with strongest interaction involves Ω(1)⋯Ω(4) stacking with parameters d(Cg1⋯Cg4) = 3.864(5) Å, α = 1.9(4)°, and Ω(2)⋯Ω(4) stacking with d(Cg1⃛Cg4) = 3.8768(9) Å, α = 4.72(7)°, where α is dihedral angle between mean ring planes. In contrast, the second strongest dimer interaction involves Ω(1)⋯Ω(4) stacking with d(Cg1⋯Cg4) = 4.162(5) Å and α = 1.9(4)°.
These interactions form a columnar arrangement of molecules, which constitutes the basic structural motif (BSM) of the crystal structure. 22 The interaction energies within the BSM account for 57.4 % of the total interaction energies within the first coordination sphere of the reference molecule.
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Author contributions: All the authors have accepted responsibility for the entire content of this submitted manuscript and approved submission.
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Research funding: The authors acknowledge the financial support of the Ministry of Science, Technological Development and Innovation of the Republic of Serbia (Agreement No. 451-03-65/2024-03/200123), Faculty of Sciences and Mathematics, University of Priština in Kosovska Mitrovica (project No. IJ-2304) and Ministry of Science, Technological Development and Innovation of the Republic of Serbia (Grants No. 451-03-66/2024-03/200125 & 451-03-65/2024-03/200125).
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Conflict of interest statement: The authors declare no conflicts of interest regarding this article.
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- The crystal structure of 3-amino-2-formyl-1-phenyl-9,10-dihydrophenanthrene-4-carbonitrile, C22H16N2O
- The crystal structure of 1,1′-(2,5-dimethylpyrazine-1,4-diyl)bis(ethan-1-one), C10H14N2O2
- Crystal structure of 5′-(9-phenyl-9H-carbazol-3-yl)-[2,2′-bithiophene]-5-carbaldehyde, C27H17NOS2
- The crystal structure of the double salt dipyridin-1-ium bromide tribromide
- Crystal structure of (E)-(3-(3-methylthiophen-2-yl)acryloyl)ferrocene, C18H16FeOS
- Crystal structure of (E)-(3-(4-phenoxyphenyl)acryloyl)ferrocene, C25H20FeO2
- Crystal structure of (E)-(3-(3,4-dimethylphenyl)acryloyl)ferrocene, C21H20FeO
- Crystal structure of [(1,4,8,11-tetraazacyclotetradecane-κ4N,N′,N′′,N‴)tetracyanidodiplatinum(II)] dimethyl sulfoxide solvate, C18H36N8O2Pt2S2
- Crystal structure of (4-ethoxybenzyl)triphenylphosphonium bromide ethanol solvate, C29H32BrO2P
- Crystal structure of (1-naphthalen-1-yl-methyl)triphenylphosphonium chloride ethanol solvate, C31H30ClOP
- Crystal structure of (1,4,8,11-tetraazacyclotetradecane-κ4N,N′,N″,N‴)platinum(II) bis[tribromido(dimethyl sulfoxide-κS)platinate(II)], C14H36Br6N4O2Pt3S2
- Crystal structure of (2-methylbenzyl)triphenylphosphonium chloride ethanol solvate, C28H30ClOP
- Crystal structure of bis(η2, σ1-8-methoxycyclooct-4-enyl)(μ2-1,4,8,11-tetraazacyclotetradecane-κ4 N, N′, N″, N‴)diplatinum(II) dibromide, C28H54Br2N4O2Pt2
- Crystal structure of (1,4,8,11-tetraazacyclotetradecane-κ4N,N′,N″,N‴)palladium(II) tetrabromidopalladate(II), C10H24Br4N4Pd2
- Crystal structure of (1,4,8,11-tetraazacyclotetradecane-κ4N,N′,N″,N‴)palladium(II) bis[trichlorido(dimethyl sulfoxide-κS)platinate(II)], C14H36Cl6N4O2PdPt2S2
- Crystal structure of (1,4,8,11-tetraazacyclotetradecane-κ4N,N′,N″,N‴)palladium(II) tetraiodidopalladate(II), C10H24I4N4Pd2
Articles in the same Issue
- Frontmatter
- New Crystal Structures
- The crystal structure of N-(3-bromo-4-fluorophenyl)-N′-hydroxy-4-{[2-(4-methylphenyl)ethyl]amino}-1,2,5-oxadiazole-3-carboximidamide, C18H17BrFN5O2
- Synthesis and crystal structure of ethyl (2S,4aS,6aS,6bR,8aR,12aS,12bR,14bR,E)-10-(((3,4-dichlorobenzyl)oxy)imino)-2,4a,6a,6b,9,9,12a-heptamethyl-13-oxo-1,2,3,4,4a,5,6,6a,6b,7,8,8a,9,10,11,12,12a,12b,13,14b-icosahydropicene-2-carboxylate
- The crystal structure of pyrazole nitrate
- Crystal structure of tetramethyl-bis(μ2-2-(2-hydroxy-3-methoxybenzylidene)-1-(6-(2-(2-hydroxy-3-methoxybenzylidene)hydrazine-1-carbonyl)picolinoyl)hydrazin-1-ido-κ4O,N,O′:O′)ditin(II) ─ ethanol (1/2), C54H62N10O14Sn2
- Crystal structure of catena-poly[μ3-iodido-(4-bromopyridine-κ1N)copper(I)], C5H4BrNCuI
- The crystal structure of cyclopentadienyl Co–P–C complexes by benzylideneacetone addition, C38H38CoO2P
- Synthesis and crystal structure of-(3S,10S,13S,17S)-N-(2-methoxyphenyl)-10,13-dimethyl-17-((R)-1-(phenylamino)ethyl)hexadecahydro-1H-cyclopenta[α]phenanthren-3-amine, C34H48N2O
- The crystal structure of (E)-3-((E)-3-(4-ethoxy-3-methoxyphenyl)-1-hydroxyallylidene) chroman-2,4-dione, C21H18O6
- The crystal structure of trans–L/D-[bis-(2-methyl-8-hydroxyquinoline-κ2 N,O) bis-(1,3,5-triaza-7-phosphaadamantane-κ2 P)cobalt(III)] tetrafluoroborate
- Crystal structure of 9-chloro-2,3,4,4a,5,6-hexahydro-1H-pyrido [1′,2′:1,6]pyrazino[2,3-b]quinoxaline, C14H15ClN4
- Crystal structure of 7-(diethylamino)-3-(benzoyl)-2 H -chromen-2-one, C20H19NO3
- The crystal structure of 4–bromo-3,5-dinitropyrazole
- Crystal structure of 8-hydroxy-3,5,8a-trimethyl-7,8,8a,9-tetrahydronaphtho[2,3-b]furan-4,6-dione, C15H16O4
- Crystal structure of 5-hydroxy-3,5,8a-trimethyl-4a,5,6,7,8a,9-hexahydronaphtho[2,3-b]furan-4,8-dione, C15H18O4
- Synthesis and crystal structure of-(3S,10S,13S,17S)-N-(2-methoxyphenyl)-10,13-dimethyl-17-((R)-1-(p-tolylamino)ethyl)hexadecahydro-1H-cyclopenta[α]phenanthren-3-amine, C35H50N2O
- The crystal structure of catena-poly((μ2-1,3,5-tri(1H- imidazol-1-yl)benzene κ2N:N′)-bis(4-hydroxbenzoato-κ1O)-zinc(II) monohydrate), C29H24N6O7Zn
- Crystal structure of 2-(benzo[d]oxazol-2-yl)acetonitrile, C9H6N2O
- Crystal structure of 1,3-dihydroxy-6,8-dimethoxy-2-(6-methyltetrahydro-2Hpyran-2-yl)-4a,9a-dihydroanthracene-9,10-dione, C22H22O7
- The crystal structure of the double salt potassium 1-methylpiperazine-1,4-di-ium trinitrate, C5H14KN5O9
- Crystal structure of 5′-hydroxy-6′-methoxy-1′-methyl-2′,3′,8′,8a′-tetrahydro-1′H-spiro[cyclohexane-1,7′-cyclopenta[ij]isoquinoline]-2,5-dien-4-one, C18H19NO3
- The crystal structure of 1,1′-(2,3,5,6-tetramethylpyrazine-1,4-diyl)bis(ethan-1-one), C12H18N2O2
- Crystal structure of [μ2-piperazine-1,4-bis(2-hydroxypropanesulfonato-κ2O:O′)] bis(μ2-4,4′-trimethylenedipyridyl-κ2N:N′)disilver(I), C18H24AgN3O4S
- Crystal structure of bis ((1-((E)-((4-methoxyphenyl)imino)methyl)naphthalen-2-yl)oxy) copper(II), C36H28CuN2O4
- Synthesis and crystal structure of 6,6′-((1E,11E)-5,8-dioxa-2,11-diazadodeca-1,11-diene-1,12-diyl) bis(2,4-di-tert-butylphenol), C36H56N2O4
- The crystal structure of barium hexahydroxidoiridate(IV) dihydroxide, Ba2[Ir(OH)6](OH)2
- Crystal structure of cinnamoyl ferrocene, C19H16FeO
- Crystal structure of (E)-3-(4-butoxyphenyl)acryloylferrocene, C23H24FeO2
- Crystal structure of 7-(dimethylamino)-2-hydroxy-2-(trifluoromethyl)-2H-chromene-3-ethyl carboxylate, C15H16F3NO4
- The crystal structure of 1-phenylethan-1-aminium 4-hydroxy-3,5-dimethoxybenzoate C17H21NO5
- The crystal structure of 1,3,5-trichloro-2-nitrobenzene
- The crystal structure of tris(μ2-bromido)-bis(η6-p-cymene)-diosmium(II) tetrafluoroborate, C20H28BBr3F4Os2
- Crystal structure of new barium lithium manganese fluorides: Ba14Li1.87Mn14.13F68 with a Jarlite–related structure
- Crystal structure of (4-fluorobenzyl)triphenylphosphonium chloride, C25H21ClFP
- The crystal structure of calcitriol–chloroform (1/1), C27H44O3⋅CHCl3
- The crystal structure of (E)-1-((3)-nitrophenyl)pyren-3-(pyren-1-yl)prop-2-en-1-one, C25H15NO3
- Crystal structure of (E)-2-hydroxy-N′-(1-(4-hydroxyphenyl)propylidene)benzohydrazide, C16H16N2O3
- Crystal structure of (E)-(3-(thiophen-2-yl)acryloyl)ferrocene, C17H14FeOS
- Crystal structure of (E)-(3-(furan-2-yl)acryloyl)ferrocene, C17H14FeO2
- Synthesis and crystal structure poly[diaqua(μ3-3-(((7-hydroxy-3-(4-methoxy-3-sulfonatophenyl)-4-oxo-4H-chromen-8-yl) methyl)ammonio)propanoate-κ3 O:O′:O″) sodium(I)] monohydrate, C20H24NNaO12S
- Crystal structure of 9-methoxy-4-(2-methoxypyridin-3-yl)-5,6-dihydrobenzo[h]quinazolin-2-amine C19H18N4O2
- Synthesis and crystal structure of 4-(difluoromethyl)-1-methyl-N-(pyridin-3-yl)-1H-pyrazole-3-carboxamide hydrate, C11H12F2N4O2
- The crystal structure of caesalfurfuric acid B, C22H32O4
- The crystal structure of 2-bromo-2-(5-bromo-2-methyl-4-nitro-1H-imidazol-1-yl)-1-phenylethanone, C12H9Br2N3O3
- The crystal structure of bis{chlorido-[μ2-(1-oxidopyridin-2-yl)(pyridin-2-yl)amido-κ3 O,N, N′]copper(II)}, C20H16Cl2Cu2N6O2
- The crystal structure of 3-amino-2-formyl-1-phenyl-9,10-dihydrophenanthrene-4-carbonitrile, C22H16N2O
- The crystal structure of 1,1′-(2,5-dimethylpyrazine-1,4-diyl)bis(ethan-1-one), C10H14N2O2
- Crystal structure of 5′-(9-phenyl-9H-carbazol-3-yl)-[2,2′-bithiophene]-5-carbaldehyde, C27H17NOS2
- The crystal structure of the double salt dipyridin-1-ium bromide tribromide
- Crystal structure of (E)-(3-(3-methylthiophen-2-yl)acryloyl)ferrocene, C18H16FeOS
- Crystal structure of (E)-(3-(4-phenoxyphenyl)acryloyl)ferrocene, C25H20FeO2
- Crystal structure of (E)-(3-(3,4-dimethylphenyl)acryloyl)ferrocene, C21H20FeO
- Crystal structure of [(1,4,8,11-tetraazacyclotetradecane-κ4N,N′,N′′,N‴)tetracyanidodiplatinum(II)] dimethyl sulfoxide solvate, C18H36N8O2Pt2S2
- Crystal structure of (4-ethoxybenzyl)triphenylphosphonium bromide ethanol solvate, C29H32BrO2P
- Crystal structure of (1-naphthalen-1-yl-methyl)triphenylphosphonium chloride ethanol solvate, C31H30ClOP
- Crystal structure of (1,4,8,11-tetraazacyclotetradecane-κ4N,N′,N″,N‴)platinum(II) bis[tribromido(dimethyl sulfoxide-κS)platinate(II)], C14H36Br6N4O2Pt3S2
- Crystal structure of (2-methylbenzyl)triphenylphosphonium chloride ethanol solvate, C28H30ClOP
- Crystal structure of bis(η2, σ1-8-methoxycyclooct-4-enyl)(μ2-1,4,8,11-tetraazacyclotetradecane-κ4 N, N′, N″, N‴)diplatinum(II) dibromide, C28H54Br2N4O2Pt2
- Crystal structure of (1,4,8,11-tetraazacyclotetradecane-κ4N,N′,N″,N‴)palladium(II) tetrabromidopalladate(II), C10H24Br4N4Pd2
- Crystal structure of (1,4,8,11-tetraazacyclotetradecane-κ4N,N′,N″,N‴)palladium(II) bis[trichlorido(dimethyl sulfoxide-κS)platinate(II)], C14H36Cl6N4O2PdPt2S2
- Crystal structure of (1,4,8,11-tetraazacyclotetradecane-κ4N,N′,N″,N‴)palladium(II) tetraiodidopalladate(II), C10H24I4N4Pd2