Literature DB >> 21754154

Benzyl 5-hy-droxy-4-oxapenta-cyclo-[5.4.1.0.0.0]dodecane-3-carboxyl-ate.

Rajshekhar Karpoormath, Tricia Naicker, Thavendran Govender, Hendrik G Kruger, Glenn E M Maguire.   

Abstract

The title compound, C(19)H(18)O(4), exhibits a long C-C bond [1.575 (2) Å] in the cage structure. In the crystal, pairs of O-H⋯O hydrogen bonds link the mol-ecules into centrosymmetric dimers. C-H⋯O inter-actions also occur.

Entities:  

Year:  2011        PMID: 21754154      PMCID: PMC3100052          DOI: 10.1107/S1600536811009020

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


Related literature

For examples of PCU cage structures that exhibit CC bond lengths that deviate from the normal value, see: Flippen-Anderson et al. (1991) ▶; Linden et al. (2005 ▶). For similar structures, see: Kruger et al. (2005 ▶, 2006 ▶); Karpoormath et al. (2010 ▶).

Experimental

Crystal data

C19H18O4 M = 310.33 Monoclinic, a = 6.5254 (2) Å b = 12.8995 (2) Å c = 16.9772 (5) Å β = 95.243 (1)° V = 1423.07 (6) Å3 Z = 4 Mo Kα radiation μ = 0.10 mm−1 T = 173 K 0.34 × 0.22 × 0.16 mm

Data collection

Nonius KappaCCD diffractometer 6925 measured reflections 3540 independent reflections 2930 reflections with I > 2σ(I) R int = 0.018

Refinement

R[F 2 > 2σ(F 2)] = 0.048 wR(F 2) = 0.119 S = 1.06 3540 reflections 212 parameters 1 restraint H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.47 e Å−3 Δρmin = −0.24 e Å−3 Data collection: COLLECT (Nonius, 2000 ▶); cell refinement: DENZO-SMN (Otwinowski & Minor, 1997 ▶); data reduction: DENZO-SMN; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: OLEX2 (Dolomanov et al., 2009) ▶; software used to prepare material for publication: SHELXL97. Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536811009020/is2678sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536811009020/is2678Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C19H18O4F(000) = 656
Mr = 310.33Dx = 1.448 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 6932 reflections
a = 6.5254 (2) Åθ = 2.4–28.3°
b = 12.8995 (2) ŵ = 0.10 mm1
c = 16.9772 (5) ÅT = 173 K
β = 95.243 (1)°Block, colourless
V = 1423.07 (6) Å30.34 × 0.22 × 0.16 mm
Z = 4
Nonius KappaCCD diffractometer2930 reflections with I > 2σ(I)
Radiation source: fine-focus sealed tubeRint = 0.018
graphiteθmax = 28.3°, θmin = 3.1°
1.2° φ and ω scansh = −8→8
6925 measured reflectionsk = −17→17
3540 independent reflectionsl = −22→22
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.048Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.119H atoms treated by a mixture of independent and constrained refinement
S = 1.06w = 1/[σ2(Fo2) + (0.0463P)2 + 0.932P] where P = (Fo2 + 2Fc2)/3
3540 reflections(Δ/σ)max < 0.001
212 parametersΔρmax = 0.47 e Å3
1 restraintΔρmin = −0.24 e Å3
Experimental. Half sphere of data collected using COLLECT strategy (Nonius, 2000). Crystal to detector distance = 35 mm; combination of φ and ω scans of 1.2°, 30 s per °, 2 iterations.X-ray single-crystal intensity data were collected on a Nonius Kappa-CCD diffractometer using graphite monochromated Mo Kα radiation (l = 0.71073 Å). Temperature was controlled by an Oxford Cryostream cooling system (Oxford Cryostat). The strategy for the data collections was evaluated using the Bruker Nonius "Collect" program (Nonius, 2000). Data were scaled and reduced using DENZO-SMN software (Otwinowski & Minor, 1997). The structure was solved by direct methods and refined employing full-matrix least-squares with the program SHELXL97 (Sheldrick, 2008) refining on F2. The molecular graphics were rendered using OLEX2 (Dolomove et al., 2009). All non-hydrogen atoms were refined anisotropically.
Geometry. All e.s.d.'s (except the e.s.d. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell e.s.d.'s are taken into account individually in the estimation of e.s.d.'s in distances, angles and torsion angles; correlations between e.s.d.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell e.s.d.'s is used for estimating e.s.d.'s 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 > σ(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.
xyzUiso*/Ueq
O10.74558 (16)0.46393 (9)0.05935 (6)0.0284 (3)
H10.695 (4)0.448 (2)0.0053 (8)0.073 (8)*
O20.45389 (15)0.54964 (8)0.09726 (6)0.0223 (2)
O30.06298 (17)0.60878 (9)0.22148 (6)0.0297 (3)
O40.10540 (16)0.65377 (8)0.09589 (6)0.0260 (2)
C10.5554 (3)0.33580 (14)0.29940 (9)0.0311 (4)
H1A0.64490.37170.34110.037*
H1B0.52030.26560.31740.037*
C20.2721 (2)0.33660 (12)0.19839 (9)0.0279 (3)
H20.15960.28650.20730.034*
C30.2365 (2)0.41085 (12)0.12688 (9)0.0246 (3)
H30.10210.40650.09370.029*
C40.3155 (2)0.52032 (11)0.15444 (8)0.0208 (3)
C50.4540 (2)0.49471 (12)0.23047 (9)0.0244 (3)
H50.48260.55530.26660.029*
C60.3646 (2)0.39964 (13)0.27044 (9)0.0276 (3)
H60.26800.41540.31130.033*
C70.4690 (2)0.29226 (12)0.16299 (9)0.0278 (3)
H70.47030.21640.15100.033*
C80.4308 (2)0.36722 (12)0.09197 (9)0.0250 (3)
H80.41270.33630.03780.030*
C90.5850 (2)0.45678 (11)0.10606 (8)0.0213 (3)
C100.6490 (2)0.45031 (12)0.19510 (8)0.0241 (3)
H100.77980.48760.21250.029*
C110.6469 (2)0.33477 (13)0.21925 (9)0.0284 (3)
H110.78100.29750.21830.034*
C120.1500 (2)0.59911 (11)0.16209 (8)0.0226 (3)
C13−0.0640 (2)0.72567 (13)0.09816 (9)0.0286 (3)
H13A−0.04650.76710.14740.034*
H13B−0.19520.68700.09760.034*
C14−0.0697 (2)0.79630 (12)0.02758 (9)0.0250 (3)
C150.0895 (3)0.80217 (13)−0.02124 (10)0.0309 (4)
H150.20770.7596−0.01110.037*
C160.0759 (3)0.87050 (14)−0.08503 (10)0.0350 (4)
H160.18430.8737−0.11870.042*
C17−0.0945 (3)0.93378 (14)−0.09964 (10)0.0347 (4)
H17−0.10250.9807−0.14290.042*
C18−0.2529 (3)0.92858 (13)−0.05118 (10)0.0336 (4)
H18−0.36970.9722−0.06100.040*
C19−0.2416 (3)0.85979 (13)0.01181 (10)0.0296 (3)
H19−0.35200.85590.04450.035*
U11U22U33U12U13U23
O10.0213 (5)0.0420 (7)0.0227 (5)0.0026 (5)0.0060 (4)0.0028 (5)
O20.0218 (5)0.0248 (5)0.0209 (5)0.0011 (4)0.0052 (4)0.0030 (4)
O30.0329 (6)0.0344 (6)0.0232 (5)0.0061 (5)0.0094 (4)0.0017 (4)
O40.0295 (6)0.0265 (5)0.0225 (5)0.0075 (4)0.0054 (4)0.0035 (4)
C10.0347 (8)0.0332 (9)0.0252 (8)0.0010 (7)0.0016 (6)0.0059 (6)
C20.0250 (7)0.0262 (8)0.0328 (8)−0.0035 (6)0.0032 (6)0.0046 (6)
C30.0198 (7)0.0242 (7)0.0294 (8)−0.0018 (6)0.0010 (6)−0.0003 (6)
C40.0203 (6)0.0243 (7)0.0183 (6)−0.0006 (5)0.0045 (5)0.0019 (5)
C50.0253 (7)0.0283 (8)0.0197 (7)0.0000 (6)0.0020 (5)−0.0005 (6)
C60.0307 (8)0.0303 (8)0.0227 (7)0.0045 (6)0.0071 (6)0.0054 (6)
C70.0303 (8)0.0230 (7)0.0304 (8)0.0009 (6)0.0042 (6)0.0002 (6)
C80.0230 (7)0.0248 (7)0.0269 (7)0.0018 (6)−0.0002 (6)−0.0027 (6)
C90.0188 (6)0.0254 (7)0.0200 (7)0.0020 (5)0.0025 (5)0.0013 (5)
C100.0206 (7)0.0309 (8)0.0205 (7)−0.0015 (6)0.0005 (5)0.0013 (6)
C110.0253 (7)0.0331 (8)0.0263 (8)0.0033 (6)−0.0002 (6)0.0058 (6)
C120.0240 (7)0.0227 (7)0.0211 (7)−0.0022 (5)0.0021 (5)0.0004 (5)
C130.0293 (8)0.0292 (8)0.0278 (8)0.0089 (6)0.0061 (6)0.0030 (6)
C140.0298 (8)0.0223 (7)0.0224 (7)0.0014 (6)0.0001 (6)−0.0028 (6)
C150.0325 (8)0.0296 (8)0.0310 (8)0.0041 (7)0.0047 (7)0.0038 (6)
C160.0420 (10)0.0348 (9)0.0290 (8)0.0017 (7)0.0077 (7)0.0036 (7)
C170.0498 (10)0.0285 (8)0.0250 (8)0.0022 (7)−0.0008 (7)0.0035 (6)
C180.0402 (9)0.0291 (8)0.0305 (8)0.0082 (7)−0.0030 (7)0.0000 (7)
C190.0318 (8)0.0291 (8)0.0277 (8)0.0048 (6)0.0024 (6)−0.0019 (6)
O1—C91.3740 (17)C7—C111.536 (2)
O1—H10.969 (10)C7—C81.548 (2)
O2—C41.4355 (16)C7—H71.0000
O2—C91.4715 (17)C8—C91.536 (2)
O3—C121.2081 (18)C8—H81.0000
O4—C121.3362 (18)C9—C101.533 (2)
O4—C131.4463 (18)C10—C111.546 (2)
C1—C111.535 (2)C10—H101.0000
C1—C61.536 (2)C11—H111.0000
C1—H1A0.9900C13—C141.503 (2)
C1—H1B0.9900C13—H13A0.9900
C2—C61.545 (2)C13—H13B0.9900
C2—C31.547 (2)C14—C151.389 (2)
C2—C71.575 (2)C14—C191.395 (2)
C2—H21.0000C15—C161.393 (2)
C3—C81.553 (2)C15—H150.9500
C3—C41.560 (2)C16—C171.384 (3)
C3—H31.0000C16—H160.9500
C4—C121.497 (2)C17—C181.380 (3)
C4—C51.542 (2)C17—H170.9500
C5—C61.542 (2)C18—C191.386 (2)
C5—C101.565 (2)C18—H180.9500
C5—H51.0000C19—H190.9500
C6—H61.0000
C9—O1—H1108.6 (16)C9—C8—H8117.7
C4—O2—C996.46 (10)C7—C8—H8117.7
C12—O4—C13115.11 (11)C3—C8—H8117.7
C11—C1—C695.19 (12)O1—C9—O2110.72 (11)
C11—C1—H1A112.7O1—C9—C10114.78 (12)
C6—C1—H1A112.7O2—C9—C10104.35 (11)
C11—C1—H1B112.7O1—C9—C8118.94 (12)
C6—C1—H1B112.7O2—C9—C8103.29 (11)
H1A—C1—H1B110.2C10—C9—C8103.19 (12)
C6—C2—C3108.38 (13)C9—C10—C11107.80 (12)
C6—C2—C7102.71 (12)C9—C10—C5101.56 (11)
C3—C2—C789.69 (11)C11—C10—C5102.95 (12)
C6—C2—H2117.3C9—C10—H10114.4
C3—C2—H2117.3C11—C10—H10114.4
C7—C2—H2117.3C5—C10—H10114.4
C2—C3—C890.34 (11)C1—C11—C7102.77 (13)
C2—C3—C4107.64 (12)C1—C11—C10103.90 (13)
C8—C3—C4100.58 (11)C7—C11—C10101.75 (12)
C2—C3—H3118.0C1—C11—H11115.5
C8—C3—H3118.0C7—C11—H11115.5
C4—C3—H3118.0C10—C11—H11115.5
O2—C4—C12112.52 (11)O3—C12—O4124.37 (14)
O2—C4—C5105.42 (11)O3—C12—C4122.71 (13)
C12—C4—C5116.41 (12)O4—C12—C4112.88 (12)
O2—C4—C3104.28 (11)O4—C13—C14109.31 (12)
C12—C4—C3114.78 (12)O4—C13—H13A109.8
C5—C4—C3102.09 (12)C14—C13—H13A109.8
C6—C5—C4108.82 (12)O4—C13—H13B109.8
C6—C5—C10103.38 (12)C14—C13—H13B109.8
C4—C5—C10101.08 (11)H13A—C13—H13B108.3
C6—C5—H5114.1C15—C14—C19119.06 (15)
C4—C5—H5114.1C15—C14—C13122.93 (14)
C10—C5—H5114.1C19—C14—C13118.01 (14)
C1—C6—C5103.84 (12)C14—C15—C16120.05 (16)
C1—C6—C2102.58 (13)C14—C15—H15120.0
C5—C6—C2101.90 (12)C16—C15—H15120.0
C1—C6—H6115.5C17—C16—C15120.37 (16)
C5—C6—H6115.5C17—C16—H16119.8
C2—C6—H6115.5C15—C16—H16119.8
C11—C7—C8108.68 (13)C18—C17—C16119.86 (16)
C11—C7—C2103.28 (12)C18—C17—H17120.1
C8—C7—C289.51 (11)C16—C17—H17120.1
C11—C7—H7117.1C17—C18—C19120.08 (16)
C8—C7—H7117.1C17—C18—H18120.0
C2—C7—H7117.1C19—C18—H18120.0
C9—C8—C7106.97 (12)C18—C19—C14120.57 (16)
C9—C8—C3102.35 (11)C18—C19—H19119.7
C7—C8—C390.47 (11)C14—C19—H19119.7
C6—C2—C3—C8103.26 (13)C3—C8—C9—O1−156.62 (12)
C7—C2—C3—C8−0.05 (11)C7—C8—C9—O2−127.86 (12)
C6—C2—C3—C42.05 (16)C3—C8—C9—O2−33.53 (13)
C7—C2—C3—C4−101.26 (12)C7—C8—C9—C10−19.38 (14)
C9—O2—C4—C12−179.39 (12)C3—C8—C9—C1074.95 (13)
C9—O2—C4—C552.74 (13)O1—C9—C10—C11−97.66 (15)
C9—O2—C4—C3−54.38 (12)O2—C9—C10—C11140.99 (12)
C2—C3—C4—O2127.36 (12)C8—C9—C10—C1133.31 (14)
C8—C3—C4—O233.59 (13)O1—C9—C10—C5154.53 (13)
C2—C3—C4—C12−109.09 (14)O2—C9—C10—C533.17 (14)
C8—C3—C4—C12157.15 (12)C8—C9—C10—C5−74.51 (13)
C2—C3—C4—C517.78 (14)C6—C5—C10—C9111.60 (13)
C8—C3—C4—C5−75.99 (13)C4—C5—C10—C9−1.00 (14)
O2—C4—C5—C6−140.89 (12)C6—C5—C10—C110.06 (14)
C12—C4—C5—C693.62 (15)C4—C5—C10—C11−112.55 (12)
C3—C4—C5—C6−32.18 (14)C6—C1—C11—C7−53.88 (14)
O2—C4—C5—C10−32.49 (14)C6—C1—C11—C1051.86 (14)
C12—C4—C5—C10−157.98 (12)C8—C7—C11—C1127.80 (13)
C3—C4—C5—C1076.22 (13)C2—C7—C11—C133.76 (15)
C11—C1—C6—C5−51.77 (14)C8—C7—C11—C1020.41 (15)
C11—C1—C6—C254.05 (14)C2—C7—C11—C10−73.63 (14)
C4—C5—C6—C1139.75 (13)C9—C10—C11—C1−139.89 (12)
C10—C5—C6—C132.92 (14)C5—C10—C11—C1−33.04 (14)
C4—C5—C6—C233.42 (15)C9—C10—C11—C7−33.39 (15)
C10—C5—C6—C2−73.42 (13)C5—C10—C11—C773.46 (13)
C3—C2—C6—C1−128.27 (13)C13—O4—C12—O3−2.0 (2)
C7—C2—C6—C1−34.31 (14)C13—O4—C12—C4175.61 (12)
C3—C2—C6—C5−20.96 (15)O2—C4—C12—O3−154.75 (14)
C7—C2—C6—C573.00 (14)C5—C4—C12—O3−32.9 (2)
C6—C2—C7—C110.35 (15)C3—C4—C12—O386.21 (18)
C3—C2—C7—C11109.13 (12)O2—C4—C12—O427.56 (17)
C6—C2—C7—C8−108.74 (12)C5—C4—C12—O4149.38 (13)
C3—C2—C7—C80.05 (11)C3—C4—C12—O4−91.48 (15)
C11—C7—C8—C9−0.84 (16)C12—O4—C13—C14168.61 (13)
C2—C7—C8—C9103.02 (12)O4—C13—C14—C15−11.6 (2)
C11—C7—C8—C3−103.91 (13)O4—C13—C14—C19169.54 (13)
C2—C7—C8—C3−0.05 (11)C19—C14—C15—C16−0.2 (2)
C2—C3—C8—C9−107.44 (12)C13—C14—C15—C16−178.99 (16)
C4—C3—C8—C90.58 (14)C14—C15—C16—C170.8 (3)
C2—C3—C8—C70.05 (12)C15—C16—C17—C18−0.6 (3)
C4—C3—C8—C7108.07 (12)C16—C17—C18—C19−0.3 (3)
C4—O2—C9—O1−177.16 (11)C17—C18—C19—C140.9 (3)
C4—O2—C9—C10−53.15 (12)C15—C14—C19—C18−0.6 (2)
C4—O2—C9—C854.46 (12)C13—C14—C19—C18178.21 (15)
C7—C8—C9—O1109.05 (14)
D—H···AD—HH···AD···AD—H···A
O1—H1···O2i0.97 (2)1.91 (2)2.8561 (16)164 (2)
C3—H3···O1ii1.002.463.3716 (18)151
C10—H10···O3iii1.002.413.3840 (19)163
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O1—H1⋯O2i0.97 (2)1.91 (2)2.8561 (16)164 (2)
C3—H3⋯O1ii1.002.463.3716 (18)151
C10—H10⋯O3iii1.002.413.3840 (19)163

Symmetry codes: (i) ; (ii) ; (iii) .

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Journal:  Acta Crystallogr A       Date:  2007-12-21       Impact factor: 2.290

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