Literature DB >> 23634139

9-(2-Hy-droxy-6-oxocyclo-hex-1-en-1-yl)-2,3,4,9-tetra-hydro-1H-xanthen-1-one.

Shaaban K Mohamed1, Mehmet Akkurt, Antar A Abdelhamid, Aamer Saeed, Ulrich Flörke.   

Abstract

In the xanthene ring system in the title compound, C19H18O4, the 4H-pyran ring has a maximum deviation of 0.110 (2) Å from planarity and the cyclo-hexene ring exhibits a puckered conformation [puckering parameters Q T = 0.452 (3) Å, θ = 57.0 (4) and ϕ = 131.7 (4)°]. The cyclo-hexene ring attached to the xanthene system adopts an envelope conformation, with the middle of the three methylene C atoms as the flap atom. In the crystal, O-H⋯O and C-H⋯O hydrogen bonds form infinite chains of R 1 (2)(6) ring motifs along [100] with the xanthene groups arranged in an alternating zigzag manner.

Entities:  

Year:  2013        PMID: 23634139      PMCID: PMC3629652          DOI: 10.1107/S1600536813007952

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


Related literature

For the bioactivity of xanthene compounds, see: Mohamed et al. (2012a ▶); Mo et al. (2010 ▶) and for their fluorescence properties, see: Menchen et al. (2003 ▶). For similar structures see: Mohamed et al. (2011 ▶, 2012b ▶); Kurbanova et al. (2012 ▶); Abdelhamid et al. (2011 ▶); Reddy et al. (2009 ▶). For ring conformations, see: Cremer & Pople (1975 ▶). For hydrogen-bond motifs, see: Bernstein et al. (1995 ▶).

Experimental

Crystal data

C19H18O4 M = 310.33 Orthorhombic, a = 13.4420 (18) Å b = 8.0015 (10) Å c = 14.2416 (18) Å V = 1531.8 (3) Å3 Z = 4 Mo Kα radiation μ = 0.09 mm−1 T = 130 K 0.37 × 0.24 × 0.15 mm

Data collection

Bruker SMART APEX diffractometer Absorption correction: multi-scan (SADABS; Sheldrick, 2004 ▶) T min = 0.966, T max = 0.986 13880 measured reflections 1901 independent reflections 1799 reflections with I > 2σ(I) R int = 0.032

Refinement

R[F 2 > 2σ(F 2)] = 0.043 wR(F 2) = 0.111 S = 1.06 1901 reflections 209 parameters 1 restraint H-atom parameters constrained Δρmax = 0.39 e Å−3 Δρmin = −0.18 e Å−3 Data collection: SMART (Bruker, 2002 ▶); cell refinement: SAINT (Bruker, 2002 ▶); data reduction: SAINT; 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: WinGX (Farrugia, 2012 ▶) and PLATON. Click here for additional data file. Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536813007952/nk2202sup1.cif Click here for additional data file. Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536813007952/nk2202Isup2.hkl Click here for additional data file. Supplementary material file. DOI: 10.1107/S1600536813007952/nk2202Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C19H18O4F(000) = 656
Mr = 310.33Dx = 1.346 Mg m3
Orthorhombic, Pna21Mo Kα radiation, λ = 0.71073 Å
Hall symbol: P 2c -2nCell parameters from 3393 reflections
a = 13.4420 (18) Åθ = 2.9–27.9°
b = 8.0015 (10) ŵ = 0.09 mm1
c = 14.2416 (18) ÅT = 130 K
V = 1531.8 (3) Å3Prism, pale-yellow
Z = 40.37 × 0.24 × 0.15 mm
Bruker SMART APEX diffractometer1901 independent reflections
Radiation source: sealed tube1799 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.032
φ and ω scansθmax = 27.9°, θmin = 2.9°
Absorption correction: multi-scan (SADABS; Sheldrick, 2004)h = −17→17
Tmin = 0.966, Tmax = 0.986k = −10→10
13880 measured reflectionsl = −18→18
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.043Hydrogen site location: difference Fourier map
wR(F2) = 0.111H-atom parameters constrained
S = 1.06w = 1/[σ2(Fo2) + (0.0739P)2 + 0.3774P] where P = (Fo2 + 2Fc2)/3
1901 reflections(Δ/σ)max < 0.001
209 parametersΔρmax = 0.39 e Å3
1 restraintΔρmin = −0.18 e Å3
Geometry. Bond distances, angles etc. have been calculated using the rounded fractional coordinates. All su's are estimated from the variances of the (full) variance-covariance matrix. The cell e.s.d.'s are taken into account in the estimation of distances, angles and torsion angles
Refinement. Refinement on F2 for ALL reflections except those flagged by the user for potential systematic errors. Weighted R-factors wR and all goodnesses of fit S are based on F2, conventional R-factors R are based on F, with F set to zero for negative F2. The observed criterion of F2 > σ(F2) is used only for calculating -R-factor-obs 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*/Ueq
O10.28192 (10)0.69820 (18)0.43470 (13)0.0184 (4)
O2−0.06046 (11)0.61746 (18)0.43776 (14)0.0212 (4)
O30.32497 (11)0.31450 (18)0.43000 (13)0.0201 (4)
O40.06177 (15)0.4417 (3)0.63635 (14)0.0332 (6)
C10.11167 (14)0.6473 (2)0.44797 (16)0.0146 (5)
C20.19662 (15)0.7556 (2)0.44266 (16)0.0148 (5)
C30.18243 (15)0.9436 (2)0.4447 (2)0.0213 (6)
C40.08584 (18)0.9945 (3)0.4923 (2)0.0287 (7)
C5−0.00064 (16)0.9004 (3)0.4487 (2)0.0282 (7)
C60.01837 (15)0.7154 (2)0.44477 (17)0.0170 (5)
C70.12663 (14)0.4583 (2)0.44760 (16)0.0143 (5)
C80.16996 (17)0.3960 (3)0.35574 (16)0.0169 (6)
C90.1140 (2)0.4019 (3)0.27230 (18)0.0245 (7)
C100.1531 (2)0.3453 (3)0.18896 (19)0.0309 (8)
C110.2489 (3)0.2819 (3)0.18615 (19)0.0337 (8)
C120.3059 (2)0.2744 (3)0.26740 (19)0.0273 (7)
C130.26539 (18)0.3314 (3)0.35123 (17)0.0189 (6)
C140.28205 (18)0.3342 (3)0.51564 (16)0.0175 (6)
C150.35058 (18)0.2726 (3)0.59122 (19)0.0247 (7)
C160.3183 (2)0.3350 (3)0.6870 (2)0.0312 (8)
C170.2073 (2)0.3126 (4)0.70056 (19)0.0329 (9)
C180.14584 (19)0.3913 (3)0.62272 (17)0.0226 (6)
C190.18972 (17)0.3968 (3)0.52852 (15)0.0159 (6)
H2−0.112200.673700.447700.0320*
H3A0.182700.986800.379600.0260*
H3B0.239000.995300.478500.0260*
H4A0.089600.969200.560200.0340*
H4B0.075501.116300.484900.0340*
H5A−0.061600.921600.485900.0340*
H5B−0.012200.942700.384300.0340*
H7A0.059400.406000.454600.0170*
H9A0.048400.445700.273600.0290*
H10A0.114300.349700.133200.0370*
H11A0.275800.243400.128400.0400*
H12A0.371600.230900.265700.0330*
H15A0.419100.311500.578100.0300*
H15B0.351000.148800.591200.0300*
H16A0.354400.272700.736400.0370*
H16B0.335500.454800.693200.0370*
H17A0.187800.363000.761300.0390*
H17B0.192100.191700.703600.0390*
U11U22U33U12U13U23
O10.0111 (6)0.0182 (6)0.0260 (8)−0.0017 (5)0.0003 (7)0.0003 (7)
O20.0101 (7)0.0176 (7)0.0358 (9)0.0000 (5)−0.0006 (8)−0.0019 (8)
O30.0144 (7)0.0194 (7)0.0265 (9)0.0032 (5)0.0007 (7)0.0003 (7)
O40.0272 (10)0.0447 (11)0.0278 (10)0.0020 (8)0.0065 (8)−0.0008 (8)
C10.0129 (9)0.0127 (8)0.0181 (10)−0.0003 (7)−0.0004 (8)−0.0004 (8)
C20.0138 (9)0.0145 (8)0.0160 (9)−0.0005 (7)−0.0019 (8)0.0003 (9)
C30.0165 (9)0.0131 (8)0.0343 (12)−0.0026 (7)0.0002 (10)0.0005 (10)
C40.0197 (11)0.0170 (10)0.0493 (16)−0.0001 (9)0.0003 (11)−0.0086 (11)
C50.0158 (10)0.0142 (9)0.0547 (17)0.0031 (7)−0.0026 (12)−0.0034 (12)
C60.0153 (9)0.0142 (8)0.0214 (10)0.0000 (7)−0.0018 (9)−0.0018 (9)
C70.0119 (8)0.0119 (7)0.0192 (10)−0.0011 (7)−0.0014 (8)0.0009 (8)
C80.0220 (11)0.0110 (10)0.0177 (10)−0.0013 (8)−0.0006 (9)−0.0005 (8)
C90.0336 (13)0.0180 (11)0.0218 (11)−0.0016 (10)−0.0075 (10)0.0001 (9)
C100.0510 (17)0.0207 (11)0.0210 (12)−0.0021 (11)−0.0086 (12)−0.0012 (10)
C110.0585 (19)0.0233 (12)0.0192 (12)0.0008 (12)0.0094 (12)−0.0019 (10)
C120.0342 (14)0.0179 (11)0.0297 (13)0.0035 (10)0.0118 (11)0.0002 (10)
C130.0235 (11)0.0133 (10)0.0198 (10)−0.0012 (8)0.0033 (9)0.0005 (8)
C140.0198 (10)0.0121 (9)0.0207 (11)−0.0017 (8)−0.0039 (9)0.0018 (8)
C150.0230 (12)0.0209 (11)0.0303 (13)0.0016 (9)−0.0069 (10)0.0052 (10)
C160.0371 (15)0.0303 (13)0.0262 (13)0.0039 (11)−0.0113 (11)0.0021 (11)
C170.0446 (17)0.0358 (15)0.0184 (12)−0.0025 (12)−0.0003 (11)0.0070 (11)
C180.0266 (12)0.0210 (10)0.0201 (11)−0.0048 (9)0.0027 (10)−0.0017 (9)
C190.0198 (10)0.0119 (9)0.0159 (10)−0.0019 (8)−0.0016 (8)0.0013 (8)
O1—C21.240 (2)C14—C151.500 (3)
O2—C61.322 (2)C15—C161.516 (4)
O3—C131.385 (3)C16—C171.515 (4)
O3—C141.358 (3)C17—C181.519 (4)
O4—C181.216 (3)C18—C191.466 (3)
O2—H20.8400C3—H3A0.9900
C1—C61.368 (3)C3—H3B0.9900
C1—C71.526 (2)C4—H4A0.9900
C1—C21.436 (3)C4—H4B0.9900
C2—C31.517 (2)C5—H5A0.9900
C3—C41.520 (3)C5—H5B0.9900
C4—C51.518 (3)C7—H7A1.0000
C5—C61.503 (3)C9—H9A0.9500
C7—C191.513 (3)C10—H10A0.9500
C7—C81.516 (3)C11—H11A0.9500
C8—C91.407 (3)C12—H12A0.9500
C8—C131.385 (3)C15—H15A0.9900
C9—C101.375 (4)C15—H15B0.9900
C10—C111.385 (5)C16—H16A0.9900
C11—C121.389 (4)C16—H16B0.9900
C12—C131.389 (4)C17—H17A0.9900
C14—C191.351 (3)C17—H17B0.9900
C13—O3—C14118.06 (18)C2—C3—H3B109.00
C6—O2—H2109.00C4—C3—H3A109.00
C2—C1—C7119.56 (16)C4—C3—H3B109.00
C6—C1—C7121.03 (16)H3A—C3—H3B108.00
C2—C1—C6119.14 (15)C3—C4—H4A110.00
O1—C2—C3119.03 (17)C3—C4—H4B110.00
C1—C2—C3119.85 (17)C5—C4—H4A110.00
O1—C2—C1121.11 (15)C5—C4—H4B110.00
C2—C3—C4112.44 (17)H4A—C4—H4B108.00
C3—C4—C5109.8 (2)C4—C5—H5A109.00
C4—C5—C6111.93 (19)C4—C5—H5B109.00
O2—C6—C5116.77 (17)C6—C5—H5A109.00
C1—C6—C5123.15 (17)C6—C5—H5B109.00
O2—C6—C1120.08 (15)H5A—C5—H5B108.00
C1—C7—C19113.18 (17)C1—C7—H7A107.00
C8—C7—C19109.57 (17)C8—C7—H7A107.00
C1—C7—C8112.30 (18)C19—C7—H7A107.00
C7—C8—C13121.2 (2)C8—C9—H9A120.00
C9—C8—C13118.0 (2)C10—C9—H9A120.00
C7—C8—C9120.8 (2)C9—C10—H10A120.00
C8—C9—C10120.9 (2)C11—C10—H10A120.00
C9—C10—C11120.1 (3)C10—C11—H11A120.00
C10—C11—C12120.3 (3)C12—C11—H11A120.00
C11—C12—C13119.0 (3)C11—C12—H12A121.00
O3—C13—C12115.9 (2)C13—C12—H12A120.00
C8—C13—C12121.7 (2)C14—C15—H15A109.00
O3—C13—C8122.3 (2)C14—C15—H15B109.00
O3—C14—C15110.2 (2)C16—C15—H15A109.00
O3—C14—C19123.7 (2)C16—C15—H15B109.00
C15—C14—C19126.1 (2)H15A—C15—H15B108.00
C14—C15—C16111.2 (2)C15—C16—H16A109.00
C15—C16—C17111.0 (2)C15—C16—H16B109.00
C16—C17—C18113.2 (2)C17—C16—H16A109.00
O4—C18—C19120.7 (2)C17—C16—H16B109.00
C17—C18—C19117.5 (2)H16A—C16—H16B108.00
O4—C18—C17121.8 (2)C16—C17—H17A109.00
C7—C19—C18118.8 (2)C16—C17—H17B109.00
C14—C19—C18118.9 (2)C18—C17—H17A109.00
C7—C19—C14122.2 (2)C18—C17—H17B109.00
C2—C3—H3A109.00H17A—C17—H17B108.00
C14—O3—C13—C811.8 (3)C8—C7—C19—C1415.1 (3)
C14—O3—C13—C12−166.1 (2)C8—C7—C19—C18−159.4 (2)
C13—O3—C14—C15166.70 (19)C7—C8—C9—C10−179.9 (2)
C13—O3—C14—C19−11.8 (3)C13—C8—C9—C10−0.1 (4)
C6—C1—C2—O1−171.8 (2)C7—C8—C13—O32.3 (3)
C6—C1—C2—C36.9 (3)C7—C8—C13—C12−179.8 (2)
C7—C1—C2—O12.4 (3)C9—C8—C13—O3−177.5 (2)
C7—C1—C2—C3−178.9 (2)C9—C8—C13—C120.3 (4)
C2—C1—C6—O2171.6 (2)C8—C9—C10—C11−0.2 (4)
C2—C1—C6—C5−8.3 (4)C9—C10—C11—C120.3 (4)
C7—C1—C6—O2−2.5 (4)C10—C11—C12—C130.0 (4)
C7—C1—C6—C5177.6 (2)C11—C12—C13—O3177.7 (2)
C2—C1—C7—C8−65.0 (3)C11—C12—C13—C8−0.3 (4)
C2—C1—C7—C1959.7 (3)O3—C14—C15—C16164.41 (19)
C6—C1—C7—C8109.0 (2)C19—C14—C15—C16−17.2 (3)
C6—C1—C7—C19−126.3 (2)O3—C14—C19—C7−2.7 (4)
O1—C2—C3—C4−157.1 (2)O3—C14—C19—C18171.8 (2)
C1—C2—C3—C424.2 (3)C15—C14—C19—C7179.1 (2)
C2—C3—C4—C5−52.2 (3)C15—C14—C19—C18−6.4 (4)
C3—C4—C5—C650.8 (3)C14—C15—C16—C1746.1 (3)
C4—C5—C6—O2158.5 (2)C15—C16—C17—C18−54.0 (3)
C4—C5—C6—C1−21.6 (3)C16—C17—C18—O4−151.9 (3)
C1—C7—C8—C9−68.2 (3)C16—C17—C18—C1931.2 (3)
C1—C7—C8—C13111.9 (2)O4—C18—C19—C7−3.0 (4)
C19—C7—C8—C9165.1 (2)O4—C18—C19—C14−177.7 (2)
C19—C7—C8—C13−14.7 (3)C17—C18—C19—C7173.9 (2)
C1—C7—C19—C14−111.1 (2)C17—C18—C19—C14−0.8 (3)
C1—C7—C19—C1874.5 (3)
D—H···AD—HH···AD···AD—H···A
O2—H2···O1i0.841.762.582 (2)164
C5—H5A···O1i0.992.423.034 (3)119
C7—H7A···O21.002.352.822 (2)108
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
O2—H2⋯O1i 0.841.762.582 (2)164
C5—H5A⋯O1i 0.992.423.034 (3)119

Symmetry code: (i) .

  8 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.  3,3,6,6-Tetra-methyl-9-phenyl-3,4,5,6-tetra-hydro-9H-xanthene-1,8(2H,7H)-dione.

Authors:  B Palakshi Reddy; V Vijayakumar; T Narasimhamurthy; J Suresh; P L Nilantha Lakshman
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-03-28

3.  9-(2-Hy-droxy-4,4-dimethyl-6-oxocyclo-hex-1-en-1-yl)-3,3-dimethyl-2,3,4,9-tetra-hydro-1H-xanthen-1-one.

Authors:  Malahat M Kurbanova; Atash V Gurbanov; Kamran T Mahmudov; Abel M Maharramov; Seik Weng Ng
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-05-02

4.  3,3,6,6-Tetra-methyl-9-(2-nitro-phen-yl)-3,4,6,7-tetra-hydro-2H-xanthene-1,8(5H,9H)-dione.

Authors:  Yingming Mo; Hong-Jun Zang; Bo-Wen Cheng
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-07-31

5.  4a-Hy-droxy-3,3,6,6-tetra-methyl-9-[6-(3,3,6,6-tetra-methyl-1,8-dioxo-2,3,4,5,6,7,8,9-octa-hydro-1H-xanthen-9-yl)pyridin-2-yl]-2,3,4,4a,5,6,7,8,9,9a-deca-hydro-1H-xanthene-1,8-dione ethanol hemisolvate hemihydrate.

Authors:  Shaaban K Mohamed; Antar A Abdelhamid; Ali N Khalilov; Atash V Gurbanov; Seik Weng Ng
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-03-12

6.  3,3,6,6-Tetra-methyl-9-[6-(3,3,6,6-tetra-methyl-1,8-dioxo-2,3,4,5,6,7,8,9-octa-hydro-1H-xanthen-9-yl)pyridin-2-yl]-2,3,4,5,6,7,8,9-octa-hydro-1H-xanthene-1,8-dione.

Authors:  Antar A Abdelhamid; Shaaban Kamel Mohamed; Mirze A Allahverdiyev; Atash V Gurbanov; Seik Weng Ng
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-03-05

7.  7-Bromo-9-(2-hy-droxy-4,4-dimethyl-6-oxocyclo-hex-1-en-1-yl)-3,3-dimethyl-2,3,4,9-tetra-hydro-1H-xanthen-1-one.

Authors:  Shaaban K Mohamed; Mehmet Akkurt; Antar A Abdelhamid; Phillip E Fanwick; Herman Potgeiter
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-05-12

8.  Structure validation in chemical crystallography.

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

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