Literature DB >> 21582158

3-Oxocyclo-butane-carboxylic acid: hydrogen bonding in a small-ring γ-keto acid.

Georgia Efthimiopoulos1, Hugh W Thompson, Roger A Lalancette.   

Abstract

The title ketocarboxylic acid, C(5)H(6)O(3), is the smallest carboxy-cyclanone to have its crystal structure determined. It adopts a chiral conformation, by rotation of its carboxyl O atoms away from the plane of skeletal symmetry that passes through the carboxyl carbon and both atoms of the ketone carbonyl. The four-membered ring is non-planar, with a shallow fold of 14.3 (1)° along a line connecting the two α-carbons of the ketone group. In the crystal, the molecules are linked by centrosymmetric hydrogen-bond pairing of ordered carboxylic acid groups [O⋯O = 2.6392 (12) Å and O-H⋯O = 175.74 (15)°], yielding two different sets of dimers, related by by a 2(1) screw axis in c, in the cell. A C-H⋯O interaction is also present.

Entities:  

Year:  2009        PMID: 21582158      PMCID: PMC2968635          DOI: 10.1107/S1600536809003961

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


Related literature

For related structures, see: Barcon et al. (1999 ▶); Borthwick (1980 ▶); Harata et al. (1977 ▶); Malak et al. (2006 ▶); Meiboom & Snyder (1967 ▶); Pigou & Schiesser (1988 ▶). For hydrogen bonding, see: Steiner (1997 ▶).

Experimental

Crystal data

C5H6O3 M = 114.10 Monoclinic, a = 8.8858 (19) Å b = 5.3631 (12) Å c = 11.625 (3) Å β = 106.899 (4)° V = 530.1 (2) Å3 Z = 4 Cu Kα radiation μ = 1.03 mm−1 T = 100 (2) K 0.48 × 0.20 × 0.15 mm

Data collection

Bruker SMART CCD APEXII area-detector diffractometer Absorption correction: numerical (SADABS; Sheldrick, 2008 ▶) T min = 0.638, T max = 0.861 3854 measured reflections 906 independent reflections 891 reflections with I > 2σ(I) R int = 0.019

Refinement

R[F 2 > 2σ(F 2)] = 0.029 wR(F 2) = 0.070 S = 1.06 906 reflections 77 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.25 e Å−3 Δρmin = −0.17 e Å−3 Data collection: APEX2 (Bruker, 2006 ▶); cell refinement: SAINT (Bruker, 2005 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXTL (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXTL; molecular graphics: SHELXTL; software used to prepare material for publication: SHELXTL. Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536809003961/fl2232sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809003961/fl2232Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C5H6O3F(000) = 240
Mr = 114.10Dx = 1.430 Mg m3
Monoclinic, P21/cMelting point: 342 K
Hall symbol: -P 2ybcCu Kα radiation, λ = 1.54178 Å
a = 8.8858 (19) ÅCell parameters from 3724 reflections
b = 5.3631 (12) Åθ = 4.0–66.7°
c = 11.625 (3) ŵ = 1.03 mm1
β = 106.899 (4)°T = 100 K
V = 530.1 (2) Å3Parallelepiped, colourless
Z = 40.48 × 0.20 × 0.15 mm
Bruker SMART CCD APEXII area-detector diffractometer906 independent reflections
Radiation source: fine-focus sealed tube891 reflections with I > 2σ(I)
graphiteRint = 0.019
φ and ω scansθmax = 66.7°, θmin = 5.2°
Absorption correction: numerical (SADABS; Sheldrick, 2008)h = −10→10
Tmin = 0.638, Tmax = 0.861k = −5→6
3854 measured reflectionsl = −13→13
Refinement on F2Secondary atom site location: difference Fourier map
Least-squares matrix: fullHydrogen site location: inferred from neighbouring sites
R[F2 > 2σ(F2)] = 0.029H atoms treated by a mixture of independent and constrained refinement
wR(F2) = 0.070w = 1/[σ2(Fo2) + (0.0304P)2 + 0.27P] where P = (Fo2 + 2Fc2)/3
S = 1.06(Δ/σ)max < 0.001
906 reflectionsΔρmax = 0.25 e Å3
77 parametersΔρmin = −0.17 e Å3
0 restraintsExtinction correction: SHELXTL (Sheldrick, 2008), Fc*=kFc[1+0.001xFc2λ3/sin(2θ)]-1/4
Primary atom site location: structure-invariant direct methodsExtinction coefficient: 0.0140 (13)
Experimental. crystal mounted on a Cryoloop using Paratone-N
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
O10.11919 (10)0.09994 (19)0.84099 (8)0.0276 (3)
C10.20439 (13)0.4459 (2)0.63057 (10)0.0164 (3)
H10.11940.56950.59490.020*
O20.42464 (10)0.29447 (16)0.57144 (8)0.0226 (3)
C20.13692 (14)0.1810 (2)0.63346 (11)0.0190 (3)
H2A0.02510.16410.58630.023*
H2B0.20160.04720.61320.023*
O30.35444 (10)0.69510 (15)0.53889 (8)0.0197 (3)
H30.4319 (19)0.696 (3)0.5052 (14)0.030*
C30.16234 (13)0.2142 (2)0.76737 (11)0.0187 (3)
C40.25515 (14)0.4542 (2)0.77165 (11)0.0204 (3)
H4A0.36980.43590.80960.024*
H4B0.21260.59840.80530.024*
C50.33761 (13)0.4681 (2)0.57643 (10)0.0158 (3)
U11U22U33U12U13U23
O10.0220 (5)0.0380 (6)0.0232 (5)−0.0043 (4)0.0075 (4)0.0098 (4)
C10.0165 (6)0.0169 (6)0.0165 (6)0.0006 (4)0.0056 (4)0.0008 (5)
O20.0221 (5)0.0194 (5)0.0304 (5)0.0050 (4)0.0140 (4)0.0079 (4)
C20.0194 (6)0.0187 (7)0.0206 (6)−0.0032 (5)0.0085 (5)−0.0026 (5)
O30.0222 (5)0.0155 (5)0.0254 (5)0.0003 (3)0.0132 (4)0.0021 (3)
C30.0135 (6)0.0229 (7)0.0198 (6)0.0018 (5)0.0049 (4)0.0033 (5)
C40.0208 (6)0.0253 (7)0.0162 (6)−0.0041 (5)0.0071 (5)−0.0035 (5)
C50.0165 (6)0.0168 (6)0.0132 (5)−0.0004 (5)0.0028 (4)0.0006 (4)
O1—C31.2024 (15)C2—H2A0.9900
C1—C51.4983 (16)C2—H2B0.9900
C1—C21.5458 (17)O3—C51.3164 (15)
C1—C41.5701 (16)O3—H30.885 (18)
C1—H11.0000C3—C41.5217 (17)
O2—C51.2225 (15)C4—H4A0.9900
C2—C31.5171 (17)C4—H4B0.9900
C5—C1—C2116.17 (10)O1—C3—C2133.43 (12)
C5—C1—C4114.48 (9)O1—C3—C4133.61 (12)
C2—C1—C489.94 (9)C2—C3—C492.88 (9)
C5—C1—H1111.5C3—C4—C187.33 (9)
C2—C1—H1111.5C3—C4—H4A114.1
C4—C1—H1111.5C1—C4—H4A114.1
C3—C2—C188.37 (9)C3—C4—H4B114.1
C3—C2—H2A113.9C1—C4—H4B114.1
C1—C2—H2A113.9H4A—C4—H4B111.3
C3—C2—H2B113.9O2—C5—O3123.66 (11)
C1—C2—H2B113.9O2—C5—C1123.18 (11)
H2A—C2—H2B111.1O3—C5—C1113.12 (10)
C5—O3—H3109.3 (10)
C5—C1—C2—C3126.54 (10)C5—C1—C4—C3−128.00 (10)
C4—C1—C2—C39.07 (8)C2—C1—C4—C3−9.05 (8)
C1—C2—C3—O1167.67 (14)C2—C1—C5—O2−24.15 (16)
C1—C2—C3—C4−9.38 (9)C4—C1—C5—O278.70 (14)
O1—C3—C4—C1−167.80 (14)C2—C1—C5—O3158.11 (10)
C2—C3—C4—C19.24 (9)C4—C1—C5—O3−99.04 (12)
D—H···AD—HH···AD···AD—H···A
O3—H3···O2i0.885 (18)1.756 (18)2.6392 (12)175.74 (15)
C1—H1···O1ii1.002.453.1003 (15)122
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O3—H3⋯O2i0.885 (18)1.756 (18)2.6392 (12)175.74 (15)
C1—H1⋯O1ii1.002.453.1003 (15)122

Symmetry codes: (i) ; (ii) .

  2 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-Oxocyclopentanecarboxylic acid: The smallest keto acid known to aggregate by catemeric hydrogen bonding.

Authors:  Muhammad H Malak; Daniel Baker; Andrew P J Brunskill; Hugh W Thompson; Roger A Lalancette
Journal:  Acta Crystallogr C       Date:  2006-11-10       Impact factor: 1.172

  2 in total
  1 in total

1.  (±)-2-Oxocyclo-penta-neacetic acid: catemeric hydrogen bonding in a γ-keto acid.

Authors:  Georgia Efthimiopoulos; Markos M Papadakis; Hugh W Thompson; Roger A Lalancette
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-03-31
  1 in total

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