Literature DB >> 21754231

2-[(1R*,4R*)-1,4-Dihy-droxy-cyclo-hex-yl]acetic acid.

Mohammad Arfan, Syed Hamid Hussain, M Nawaz Tahir, Jamal Rafique, Farzana Shaheen.   

Abstract

The title compound, C(8)H(14)O(4), is an isolation product of the aerial parts of Senecio desfontanei. The acetic acid group is oriented at a dihedral angle of 48.03 (9)° with respect to the basal plane of the cyclo-hexane-1,4-diol chair. An intra-molecular O-H⋯O hydrogen bond generates an S(6) ring with an envelope conformation. In the crystal, mol-ecules are linked by O-H⋯O hydrogen bonds, resulting in R(3) (3)(20) ring motifs and C(2) O-H⋯O-H⋯O-H⋯ chains. Overall, a three-dimensional polymeric network arises. A C-H⋯O contact is also present.

Entities:  

Year:  2011        PMID: 21754231      PMCID: PMC3100032          DOI: 10.1107/S1600536811010397

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


Related literature

For related structures, see: Jasinski et al. (2009 ▶); Vasudev et al. (2008 ▶). For graph-set notation, see: Bernstein et al. (1995 ▶).

Experimental

Crystal data

C8H14O4 M = 174.19 Triclinic, a = 5.7301 (4) Å b = 6.3493 (3) Å c = 6.4964 (4) Å α = 92.863 (2)° β = 97.223 (1)° γ = 108.258 (2)° V = 221.67 (2) Å3 Z = 1 Mo Kα radiation μ = 0.10 mm−1 T = 296 K 0.28 × 0.12 × 0.10 mm

Data collection

Bruker Kappa APEXII CCD diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2005 ▶) T min = 0.935, T max = 0.965 3664 measured reflections 1092 independent reflections 932 reflections with I > 2σ(I) R int = 0.025

Refinement

R[F 2 > 2σ(F 2)] = 0.037 wR(F 2) = 0.091 S = 1.07 1092 reflections 118 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.22 e Å−3 Δρmin = −0.15 e Å−3 Data collection: APEX2 (Bruker, 2009 ▶); cell refinement: SAINT (Bruker, 2009 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 for Windows (Farrugia, 1997 ▶) and PLATON (Spek, 2009 ▶); software used to prepare material for publication: WinGX (Farrugia, 1999 ▶) and PLATON. Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536811010397/hb5819sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536811010397/hb5819Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C8H14O4Z = 1
Mr = 174.19F(000) = 94
Triclinic, P1Dx = 1.305 Mg m3
Hall symbol: P 1Mo Kα radiation, λ = 0.71073 Å
a = 5.7301 (4) ÅCell parameters from 933 reflections
b = 6.3493 (3) Åθ = 3.2–28.4°
c = 6.4964 (4) ŵ = 0.10 mm1
α = 92.863 (2)°T = 296 K
β = 97.223 (1)°Needle, colorless
γ = 108.258 (2)°0.28 × 0.12 × 0.10 mm
V = 221.67 (2) Å3
Bruker Kappa APEXII CCD diffractometer1092 independent reflections
Radiation source: fine-focus sealed tube932 reflections with I > 2σ(I)
graphiteRint = 0.025
Detector resolution: 7.50 pixels mm-1θmax = 28.4°, θmin = 3.2°
ω scansh = −7→7
Absorption correction: multi-scan (SADABS; Bruker, 2005)k = −8→8
Tmin = 0.935, Tmax = 0.965l = −8→8
3664 measured reflections
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.037Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.091H atoms treated by a mixture of independent and constrained refinement
S = 1.07w = 1/[σ2(Fo2) + (0.0539P)2 + 0.0008P] where P = (Fo2 + 2Fc2)/3
1092 reflections(Δ/σ)max < 0.001
118 parametersΔρmax = 0.22 e Å3
0 restraintsΔρmin = −0.15 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 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
O1−0.1847 (3)0.0914 (3)−0.1705 (3)0.0440 (5)
O20.1853 (4)0.0521 (4)−0.1685 (4)0.0773 (9)
O30.6317 (3)0.6910 (3)0.6378 (3)0.0431 (5)
O40.5902 (3)0.4332 (3)−0.0313 (2)0.0359 (5)
C10.0589 (4)0.1643 (4)−0.1287 (3)0.0417 (7)
C20.1589 (4)0.4007 (4)−0.0290 (4)0.0401 (7)
C30.4158 (4)0.4631 (3)0.1003 (3)0.0304 (6)
C40.4181 (4)0.3231 (3)0.2851 (3)0.0382 (7)
C50.6749 (5)0.3888 (4)0.4164 (4)0.0414 (7)
C60.7759 (4)0.6356 (4)0.4899 (3)0.0391 (7)
C70.7640 (4)0.7782 (4)0.3096 (4)0.0379 (7)
C80.5067 (4)0.7087 (3)0.1812 (3)0.0341 (7)
H1−0.238 (5)−0.036 (5)−0.231 (5)0.0528*
H2A0.043540.423910.059890.0481*
H2B0.165390.50069−0.137780.0481*
H30.627 (5)0.610 (5)0.740 (5)0.0517*
H40.556 (5)0.301 (5)−0.077 (4)0.0430*
H4A0.298950.342230.371840.0458*
H4B0.367520.166990.233680.0458*
H5A0.665200.303690.536800.0497*
H5B0.789170.350990.334720.0497*
H60.948960.672710.556250.0469*
H7A0.809650.932950.364340.0455*
H7B0.883520.766090.220230.0455*
H8A0.510740.798000.063990.0409*
H8B0.390570.737630.266220.0409*
U11U22U33U12U13U23
O10.0402 (9)0.0388 (9)0.0490 (10)0.0100 (7)0.0025 (7)−0.0051 (7)
O20.0475 (11)0.0688 (13)0.1084 (19)0.0249 (10)−0.0090 (11)−0.0466 (13)
O30.0573 (10)0.0406 (9)0.0293 (8)0.0122 (7)0.0094 (7)0.0006 (7)
O40.0380 (8)0.0414 (9)0.0320 (8)0.0167 (7)0.0106 (6)0.0001 (7)
C10.0380 (12)0.0476 (12)0.0379 (12)0.0158 (10)−0.0004 (9)−0.0073 (10)
C20.0357 (11)0.0408 (12)0.0448 (13)0.0158 (9)0.0042 (10)−0.0056 (10)
C30.0343 (10)0.0324 (10)0.0265 (10)0.0126 (8)0.0087 (8)0.0002 (8)
C40.0492 (12)0.0295 (10)0.0346 (12)0.0093 (9)0.0103 (10)0.0032 (9)
C50.0574 (14)0.0424 (12)0.0315 (12)0.0253 (11)0.0073 (10)0.0079 (9)
C60.0381 (11)0.0468 (13)0.0322 (12)0.0151 (10)0.0025 (9)0.0006 (9)
C70.0422 (12)0.0336 (10)0.0352 (12)0.0069 (9)0.0097 (9)0.0024 (9)
C80.0412 (12)0.0311 (10)0.0322 (12)0.0138 (9)0.0076 (9)0.0045 (9)
O1—C11.313 (3)C6—C71.524 (3)
O2—C11.205 (3)C7—C81.520 (3)
O3—C61.441 (3)C2—H2A0.9700
O4—C31.443 (3)C2—H2B0.9700
O1—H10.83 (3)C4—H4A0.9700
O3—H30.86 (3)C4—H4B0.9700
O4—H40.83 (3)C5—H5A0.9700
C1—C21.507 (3)C5—H5B0.9700
C2—C31.523 (3)C6—H60.9800
C3—C81.523 (3)C7—H7A0.9700
C3—C41.530 (3)C7—H7B0.9700
C4—C51.527 (4)C8—H8A0.9700
C5—C61.519 (3)C8—H8B0.9700
C1—O1—H1112 (2)H2A—C2—H2B108.00
C6—O3—H3111 (2)C3—C4—H4A109.00
C3—O4—H4112 (2)C3—C4—H4B109.00
O1—C1—O2122.7 (2)C5—C4—H4A109.00
O1—C1—C2112.7 (2)C5—C4—H4B109.00
O2—C1—C2124.7 (2)H4A—C4—H4B108.00
C1—C2—C3114.80 (19)C4—C5—H5A109.00
O4—C3—C8106.40 (17)C4—C5—H5B109.00
O4—C3—C4109.61 (17)C6—C5—H5A109.00
C4—C3—C8109.02 (15)C6—C5—H5B109.00
C2—C3—C4112.02 (18)H5A—C5—H5B108.00
C2—C3—C8110.55 (18)O3—C6—H6109.00
O4—C3—C2109.09 (17)C5—C6—H6109.00
C3—C4—C5111.86 (18)C7—C6—H6109.00
C4—C5—C6112.5 (2)C6—C7—H7A109.00
O3—C6—C7107.08 (19)C6—C7—H7B109.00
O3—C6—C5110.6 (2)C8—C7—H7A109.00
C5—C6—C7111.52 (18)C8—C7—H7B109.00
C6—C7—C8112.19 (19)H7A—C7—H7B108.00
C3—C8—C7112.17 (18)C3—C8—H8A109.00
C1—C2—H2A109.00C3—C8—H8B109.00
C1—C2—H2B109.00C7—C8—H8A109.00
C3—C2—H2A109.00C7—C8—H8B109.00
C3—C2—H2B109.00H8A—C8—H8B108.00
O1—C1—C2—C3156.30 (19)C2—C3—C8—C7−179.47 (19)
O2—C1—C2—C3−24.2 (3)C4—C3—C8—C757.0 (2)
C1—C2—C3—O459.4 (2)C3—C4—C5—C654.8 (3)
C1—C2—C3—C4−62.1 (2)C4—C5—C6—O367.6 (2)
C1—C2—C3—C8176.07 (18)C4—C5—C6—C7−51.4 (3)
O4—C3—C4—C559.7 (2)O3—C6—C7—C8−69.5 (2)
C2—C3—C4—C5−179.04 (19)C5—C6—C7—C851.6 (3)
C8—C3—C4—C5−56.4 (2)C6—C7—C8—C3−55.6 (2)
O4—C3—C8—C7−61.2 (2)
D—H···AD—HH···AD···AD—H···A
O1—H1···O3i0.83 (3)1.78 (3)2.608 (3)177 (3)
O3—H3···O4ii0.86 (3)1.90 (3)2.756 (2)175 (3)
O4—H4···O1iii0.83 (3)2.39 (3)3.007 (3)131 (3)
O4—H4···O20.83 (3)2.20 (3)2.789 (3)128 (3)
C5—H5A···O1iv0.972.603.511 (3)157
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O1—H1⋯O3i0.83 (3)1.78 (3)2.608 (3)177 (3)
O3—H3⋯O4ii0.86 (3)1.90 (3)2.756 (2)175 (3)
O4—H4⋯O1iii0.83 (3)2.39 (3)3.007 (3)131 (3)
O4—H4⋯O20.83 (3)2.20 (3)2.789 (3)128 (3)
C5—H5A⋯O1iv0.972.603.511 (3)157

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

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