Literature DB >> 22058919

rac-cis-Cyclo-hexane-1,2-dicarb-oxy-lic acid-isoquinoline (1/1).

Graham Smith1, Urs D Wermuth.   

Abstract

In the crystal structure of the title mol-ecular adduct, C(9)H(7)N·C(8)H(12)O(4), the two species are -linked through a carb-oxy-lic acid-isoquinoline O-H⋯N hydrogen bond. These mol-ecular pairs then inter-associate through the second acid group of the cis-cyclo-hexane-1,2-dicarb-oxy-lic acid molecules, forming a classic centrosymmetric cyclic head-to-head carb-oxy-lic acid-carboxyl O-H⋯O hydrogen-bonding association [graph-set R(2) (2)(8)], giving a zero-dimensional (cluster) structure, consisting of two of each species.

Entities:  

Year:  2011        PMID: 22058919      PMCID: PMC3200759          DOI: 10.1107/S1600536811030613

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


Related literature

For the structure of racemic cis-cyclo­hexane-1,2-dicarb­oxy­lic acid, see: Benedetti et al. (1970 ▶). For the structures of the racemic 1:1 ammonium and 2-amino­pyridinium salts of this acid, see: Smith & Wermuth (2011a ▶,b ▶). For the structure of the 1:1 adduct with 4,4′-bipyridine, see: Bhogala et al. (2005 ▶). For hydrogen bonding in carb­oxy­lic acids and graph-set analysis, see: Leiserowitz (1976 ▶); Etter et al. (1990 ▶).

Experimental

Crystal data

C9H7N·C8H12O4 M = 301.33 Triclinic, a = 6.2459 (3) Å b = 11.4238 (6) Å c = 11.9970 (6) Å α = 64.082 (5)° β = 77.793 (4)° γ = 82.756 (4)° V = 751.95 (7) Å3 Z = 2 Mo Kα radiation μ = 0.10 mm−1 T = 200 K 0.40 × 0.28 × 0.20 mm

Data collection

Oxford Diffraction Gemini-S CCD-detector diffractometer Absorption correction: multi-scan (CrysAlis PRO; Oxford Diffraction, 2010 ▶) T min = 0.974, T max = 0.990 9094 measured reflections 2952 independent reflections 2463 reflections with I > 2σ(I) R int = 0.022

Refinement

R[F 2 > 2σ(F 2)] = 0.038 wR(F 2) = 0.090 S = 1.02 2952 reflections 207 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.17 e Å−3 Δρmin = −0.18 e Å−3 Data collection: CrysAlis PRO (Oxford Diffraction, 2010 ▶); cell refinement: CrysAlis PRO; data reduction: CrysAlis PRO; program(s) used to solve structure: SIR92 (Altomare et al., 1994 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶) within WinGX (Farrugia, 1999 ▶); molecular graphics: PLATON (Spek, 2009 ▶); software used to prepare material for publication: PLATON (Spek, 2009 ▶). Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536811030613/nk2108sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811030613/nk2108Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536811030613/nk2108Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C9H7N·C8H12O4Z = 2
Mr = 301.33F(000) = 320
Triclinic, P1Dx = 1.331 Mg m3
Hall symbol: -P 1Melting point = 439–441 K
a = 6.2459 (3) ÅMo Kα radiation, λ = 0.71073 Å
b = 11.4238 (6) ÅCell parameters from 4474 reflections
c = 11.9970 (6) Åθ = 3.3–28.7°
α = 64.082 (5)°µ = 0.10 mm1
β = 77.793 (4)°T = 200 K
γ = 82.756 (4)°Block, colourless
V = 751.95 (7) Å30.40 × 0.28 × 0.20 mm
Oxford Diffraction Gemini-S CCD-detector diffractometer2952 independent reflections
Radiation source: Enhance (Mo) X-ray source2463 reflections with I > 2σ(I)
graphiteRint = 0.022
Detector resolution: 16.077 pixels mm-1θmax = 26.0°, θmin = 3.3°
ω scansh = −7→7
Absorption correction: multi-scan (CrysAlis PRO; Oxford Diffraction, 2010)k = −14→14
Tmin = 0.974, Tmax = 0.990l = −14→14
9094 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)] = 0.038Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.090H atoms treated by a mixture of independent and constrained refinement
S = 1.02w = 1/[σ2(Fo2) + (0.0354P)2 + 0.20P] where P = (Fo2 + 2Fc2)/3
2952 reflections(Δ/σ)max < 0.001
207 parametersΔρmax = 0.17 e Å3
0 restraintsΔρmin = −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 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
O110.70832 (16)1.07685 (11)0.86864 (10)0.0405 (4)
O120.37261 (16)1.01881 (10)0.88359 (9)0.0371 (3)
O210.49576 (18)0.88369 (10)0.70388 (12)0.0476 (4)
O220.17799 (18)0.95466 (11)0.63667 (11)0.0468 (4)
C10.5909 (2)1.13098 (13)0.67706 (12)0.0272 (4)
C20.4067 (2)1.11424 (13)0.61893 (12)0.0272 (4)
C30.1978 (2)1.19528 (13)0.63551 (13)0.0298 (4)
C40.2466 (2)1.33837 (14)0.58905 (14)0.0338 (4)
C50.4233 (2)1.35310 (13)0.65186 (13)0.0314 (4)
C60.6329 (2)1.27692 (13)0.62795 (13)0.0309 (4)
C110.5440 (2)1.06979 (12)0.81900 (13)0.0271 (4)
C210.3661 (2)0.97179 (14)0.65964 (13)0.0308 (4)
N2A0.1006 (2)0.70353 (12)0.71708 (12)0.0366 (4)
C1A0.2157 (2)0.61693 (14)0.79877 (14)0.0343 (5)
C3A−0.0816 (3)0.66352 (15)0.69941 (14)0.0375 (5)
C4A−0.1451 (2)0.53805 (15)0.76063 (14)0.0357 (5)
C5A−0.0839 (3)0.31194 (15)0.92123 (15)0.0390 (5)
C6A0.0362 (3)0.22778 (16)1.00839 (16)0.0434 (5)
C7A0.2218 (3)0.26877 (16)1.02899 (15)0.0421 (5)
C8A0.2845 (2)0.39437 (15)0.96060 (14)0.0365 (5)
C9A0.1621 (2)0.48468 (14)0.87014 (13)0.0304 (4)
C10A−0.0255 (2)0.44335 (14)0.84987 (13)0.0303 (4)
H10.725001.088800.649900.0410*
H20.461401.149500.528100.0410*
H110.669 (3)1.037 (2)0.959 (2)0.080 (7)*
H220.158 (3)0.862 (2)0.663 (2)0.078 (6)*
H310.094201.188400.589000.0450*
H320.131001.160900.723800.0450*
H410.294901.376000.498500.0510*
H420.113701.385500.607300.0510*
H510.370801.321500.741800.0470*
H520.454101.444500.619000.0470*
H610.742301.286700.669600.0460*
H620.689901.312200.538300.0460*
H1A0.340100.644200.810400.0410*
H3A−0.165800.724600.643200.0450*
H4A−0.267700.514500.743700.0430*
H5A−0.205300.282900.908500.0470*
H6A−0.004900.141901.055100.0520*
H7A0.301700.210201.089300.0510*
H8A0.408500.420700.973500.0440*
U11U22U33U12U13U23
O110.0362 (6)0.0521 (7)0.0326 (6)−0.0141 (5)−0.0111 (5)−0.0120 (5)
O120.0331 (6)0.0448 (6)0.0305 (5)−0.0113 (5)−0.0061 (4)−0.0105 (5)
O210.0450 (6)0.0329 (6)0.0715 (8)0.0055 (5)−0.0211 (6)−0.0251 (6)
O220.0487 (7)0.0313 (6)0.0680 (8)−0.0050 (5)−0.0269 (6)−0.0197 (6)
C10.0240 (7)0.0283 (7)0.0305 (7)−0.0012 (5)−0.0032 (5)−0.0141 (6)
C20.0303 (7)0.0285 (7)0.0247 (7)−0.0036 (6)−0.0036 (5)−0.0128 (6)
C30.0272 (7)0.0299 (7)0.0326 (7)−0.0030 (6)−0.0061 (6)−0.0126 (6)
C40.0332 (7)0.0284 (7)0.0380 (8)−0.0008 (6)−0.0084 (6)−0.0116 (6)
C50.0372 (8)0.0241 (7)0.0319 (7)−0.0056 (6)−0.0045 (6)−0.0106 (6)
C60.0300 (7)0.0322 (8)0.0298 (7)−0.0085 (6)−0.0029 (6)−0.0116 (6)
C110.0275 (7)0.0228 (7)0.0334 (7)0.0003 (5)−0.0081 (6)−0.0131 (6)
C210.0345 (7)0.0326 (8)0.0300 (7)−0.0022 (6)−0.0053 (6)−0.0174 (6)
N2A0.0422 (7)0.0331 (7)0.0390 (7)−0.0029 (5)−0.0073 (6)−0.0189 (6)
C1A0.0326 (8)0.0379 (8)0.0420 (8)−0.0036 (6)−0.0051 (6)−0.0256 (7)
C3A0.0438 (9)0.0391 (8)0.0354 (8)0.0015 (7)−0.0132 (7)−0.0190 (7)
C4A0.0350 (8)0.0431 (9)0.0393 (8)−0.0030 (6)−0.0101 (6)−0.0249 (7)
C5A0.0368 (8)0.0376 (8)0.0493 (9)−0.0062 (6)−0.0046 (7)−0.0247 (8)
C6A0.0498 (10)0.0316 (8)0.0468 (9)−0.0026 (7)−0.0025 (8)−0.0172 (7)
C7A0.0483 (9)0.0386 (9)0.0417 (9)0.0091 (7)−0.0118 (7)−0.0201 (7)
C8A0.0347 (8)0.0414 (9)0.0429 (9)0.0045 (6)−0.0108 (7)−0.0262 (7)
C9A0.0308 (7)0.0347 (8)0.0333 (7)0.0003 (6)−0.0037 (6)−0.0225 (6)
C10A0.0312 (7)0.0345 (8)0.0330 (7)−0.0015 (6)−0.0025 (6)−0.0226 (6)
O11—C111.3175 (17)C4—H410.9700
O12—C111.2237 (17)C5—H510.9700
O21—C211.2082 (19)C5—H520.9700
O22—C211.3178 (18)C6—H620.9700
O11—H110.96 (2)C6—H610.9700
O22—H220.98 (2)C1A—C9A1.415 (2)
N2A—C3A1.366 (2)C3A—C4A1.361 (2)
N2A—C1A1.314 (2)C4A—C10A1.413 (2)
C1—C21.5356 (19)C5A—C6A1.361 (3)
C1—C111.5081 (19)C5A—C10A1.415 (2)
C1—C61.543 (2)C6A—C7A1.408 (3)
C2—C211.519 (2)C7A—C8A1.365 (3)
C2—C31.532 (2)C8A—C9A1.414 (2)
C3—C41.527 (2)C9A—C10A1.420 (2)
C4—C51.5243 (19)C1A—H1A0.9300
C5—C61.525 (2)C3A—H3A0.9300
C1—H10.9800C4A—H4A0.9300
C2—H20.9800C5A—H5A0.9300
C3—H310.9700C6A—H6A0.9300
C3—H320.9700C7A—H7A0.9300
C4—H420.9700C8A—H8A0.9300
C11—O11—H11109.3 (12)C6—C5—H51110.00
C21—O22—H22110.7 (12)C4—C5—H51109.00
C1A—N2A—C3A118.09 (14)H51—C5—H52108.00
C2—C1—C6110.04 (11)C6—C5—H52110.00
C6—C1—C11109.54 (12)C1—C6—H61109.00
C2—C1—C11113.10 (11)C1—C6—H62109.00
C1—C2—C21112.12 (11)C5—C6—H62109.00
C3—C2—C21113.55 (11)H61—C6—H62108.00
C1—C2—C3113.23 (12)C5—C6—H61109.00
C2—C3—C4111.43 (11)N2A—C1A—C9A124.04 (13)
C3—C4—C5111.18 (12)N2A—C3A—C4A122.78 (15)
C4—C5—C6110.73 (13)C3A—C4A—C10A120.23 (14)
C1—C6—C5111.33 (11)C6A—C5A—C10A120.47 (17)
O11—C11—C1112.94 (11)C5A—C6A—C7A121.01 (17)
O12—C11—C1124.77 (12)C6A—C7A—C8A120.05 (16)
O11—C11—O12122.29 (13)C7A—C8A—C9A120.39 (14)
O22—C21—C2112.83 (13)C1A—C9A—C8A122.95 (13)
O21—C21—C2123.78 (13)C1A—C9A—C10A117.55 (13)
O21—C21—O22123.33 (16)C8A—C9A—C10A119.49 (14)
C2—C1—H1108.00C4A—C10A—C5A124.13 (14)
C11—C1—H1108.00C4A—C10A—C9A117.27 (14)
C6—C1—H1108.00C5A—C10A—C9A118.58 (14)
C1—C2—H2106.00N2A—C1A—H1A118.00
C21—C2—H2106.00C9A—C1A—H1A118.00
C3—C2—H2106.00N2A—C3A—H3A119.00
C2—C3—H31109.00C4A—C3A—H3A119.00
C2—C3—H32109.00C3A—C4A—H4A120.00
C4—C3—H32109.00C10A—C4A—H4A120.00
H31—C3—H32108.00C6A—C5A—H5A120.00
C4—C3—H31109.00C10A—C5A—H5A120.00
C3—C4—H42109.00C5A—C6A—H6A120.00
C5—C4—H41109.00C7A—C6A—H6A119.00
C5—C4—H42109.00C6A—C7A—H7A120.00
H41—C4—H42108.00C8A—C7A—H7A120.00
C3—C4—H41109.00C7A—C8A—H8A120.00
C4—C5—H52110.00C9A—C8A—H8A120.00
C3A—N2A—C1A—C9A−0.3 (2)C3—C4—C5—C657.52 (15)
C1A—N2A—C3A—C4A−1.4 (2)C4—C5—C6—C1−58.31 (15)
C6—C1—C2—C3−52.58 (14)N2A—C1A—C9A—C8A−177.79 (15)
C11—C1—C2—C21−59.79 (16)N2A—C1A—C9A—C10A1.2 (2)
C6—C1—C2—C21177.35 (11)N2A—C3A—C4A—C10A2.1 (3)
C11—C1—C2—C370.29 (16)C3A—C4A—C10A—C5A177.60 (16)
C2—C1—C11—O11175.82 (13)C3A—C4A—C10A—C9A−1.0 (2)
C2—C1—C11—O12−4.5 (2)C10A—C5A—C6A—C7A−0.5 (3)
C6—C1—C11—O11−61.03 (16)C6A—C5A—C10A—C4A−177.82 (16)
C6—C1—C11—O12118.67 (16)C6A—C5A—C10A—C9A0.8 (2)
C11—C1—C6—C5−69.79 (14)C5A—C6A—C7A—C8A−0.4 (3)
C2—C1—C6—C555.15 (14)C6A—C7A—C8A—C9A1.0 (3)
C21—C2—C3—C4−178.03 (11)C7A—C8A—C9A—C1A178.30 (16)
C1—C2—C3—C452.62 (15)C7A—C8A—C9A—C10A−0.7 (2)
C3—C2—C21—O21−148.08 (14)C1A—C9A—C10A—C4A−0.5 (2)
C3—C2—C21—O2234.64 (16)C1A—C9A—C10A—C5A−179.24 (14)
C1—C2—C21—O21−18.2 (2)C8A—C9A—C10A—C4A178.53 (14)
C1—C2—C21—O22164.55 (12)C8A—C9A—C10A—C5A−0.2 (2)
C2—C3—C4—C5−54.27 (15)
D—H···AD—HH···AD···AD—H···A
O11—H11···O12i0.96 (2)1.68 (2)2.6362 (14)171.7 (18)
O22—H22···N2A0.98 (2)1.69 (2)2.670 (2)174.5 (19)
C3—H32···O120.972.543.1126 (17)117
C6—H61···O110.972.532.8841 (18)101
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O11—H11⋯O12i0.96 (2)1.68 (2)2.6362 (14)171.7 (18)
O22—H22⋯N2A0.98 (2)1.69 (2)2.670 (2)174.5 (19)

Symmetry code: (i) .

  5 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.  Graph-set analysis of hydrogen-bond patterns in organic crystals.

Authors:  M C Etter; J C MacDonald; J Bernstein
Journal:  Acta Crystallogr B       Date:  1990-04-01

3.  rac-Ammonium cis-2-carb-oxy-cyclo-hexane-1-carboxyl-ate.

Authors:  Graham Smith; Urs D Wermuth
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2010-12-18

4.  rac-2-Amino-pyridinium cis-2-carb-oxy-cyclo-hexane-1-carboxyl-ate.

Authors:  Graham Smith; Urs D Wermuth
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2011-07-02

5.  Structure validation in chemical crystallography.

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

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