Literature DB >> 22412562

rac-4-Carbamoylpiperidinium cis-2-car-boxy-cyclo-hexane-1-carboxyl-ate.

Graham Smith1, Urs D Wermuth.   

Abstract

In the title racemic salt, C(6)H(13)N(2)O(+)·C(8)H(11)O(4) (-), formed from the reaction of cis-cyclo-hexane-1,2-dicarb-oxy-lic anhydride with isonipecotamide, the cations are linked into duplex chain substructures through both centrosymmetric cyclic head-to-head 'amide motif' hydrogen-bonding associations [graph set R(2) (2)(8)] and 'side-by-side' R(2) (2)(14) associations. The anions are incorporated into the chains through cyclic R(4) (3)(10) inter-actions involving amide and piperidinium N-H⋯O(carbox-yl) hydrogen bonds which, together with inter-anion carb-oxy-lic acid O-H⋯O(carbox-yl) hydrogen bonds, give a two-dimensional layered structure extending along (011).

Entities:  

Year:  2012        PMID: 22412562      PMCID: PMC3295451          DOI: 10.1107/S1600536812004710

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


Related literature

For examples of structures of 1:1 Lewis base salts of cis-cyclo­hexane-1,2-dicarb­oxy­lic acid, see: Smith & Wermuth (2011a ▶,b ▶). For examples of isonipecotamide proton-transfer salts, see: Smith & Wermuth (2010 ▶). For graph-set analysis, see: Etter et al. (1990 ▶). For hydrogen-bonding motifs, see: Allen et al. (1998 ▶).

Experimental

Crystal data

C6H13N2O+·C8H11O4 M = 300.35 Monoclinic, a = 19.0097 (14) Å b = 9.0667 (7) Å c = 9.1999 (8) Å β = 92.022 (7)° V = 1584.7 (2) Å3 Z = 4 Mo Kα radiation μ = 0.10 mm−1 T = 200 K 0.40 × 0.35 × 0.10 mm

Data collection

Oxford Gemini-S CCD area-detector diffractometer Absorption correction: multi-scan (CrysAlis PRO; Oxford Diffraction, 2010 ▶) T min = 0.86, T max = 0.98 10518 measured reflections 3100 independent reflections 2146 reflections with I > 2σ(I) R int = 0.057

Refinement

R[F 2 > 2σ(F 2)] = 0.075 wR(F 2) = 0.182 S = 1.06 3100 reflections 210 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.43 e Å−3 Δρmin = −0.20 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. Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536812004710/nk2139sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812004710/nk2139Isup2.hkl Supplementary material file. DOI: 10.1107/S1600536812004710/nk2139Isup3.cml Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C6H13N2O+·C8H11O4F(000) = 644
Mr = 300.35Dx = 1.255 Mg m3
Monoclinic, P21/cMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ybcCell parameters from 3793 reflections
a = 19.0097 (14) Åθ = 3.2–28.9°
b = 9.0667 (7) ŵ = 0.10 mm1
c = 9.1999 (8) ÅT = 200 K
β = 92.022 (7)°Plate, colourless
V = 1584.7 (2) Å30.40 × 0.35 × 0.10 mm
Z = 4
Oxford Gemini-S CCD area-detector diffractometer3100 independent reflections
Radiation source: Enhance (Mo) X-ray source2146 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.057
Detector resolution: 16.077 pixels mm-1θmax = 26.0°, θmin = 3.2°
ω scansh = −23→22
Absorption correction: multi-scan (CrysAlis PRO; Oxford Diffraction, 2010)k = −11→11
Tmin = 0.86, Tmax = 0.98l = −11→11
10518 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)] = 0.075Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.182H atoms treated by a mixture of independent and constrained refinement
S = 1.06w = 1/[σ2(Fo2) + (0.0845P)2 + 0.9949P] where P = (Fo2 + 2Fc2)/3
3100 reflections(Δ/σ)max = 0.002
210 parametersΔρmax = 0.43 e Å3
0 restraintsΔρmin = −0.20 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
O110.21833 (13)0.8455 (3)0.0243 (3)0.0522 (9)
O120.23582 (11)1.0432 (3)−0.1098 (2)0.0415 (8)
O210.25201 (12)1.1290 (3)0.2369 (3)0.0487 (9)
O220.31747 (13)1.3299 (3)0.2117 (3)0.0485 (9)
C10.33119 (16)0.9592 (3)0.0442 (4)0.0362 (10)
C20.35236 (15)1.1183 (4)0.0836 (4)0.0337 (10)
C30.42799 (19)1.1251 (5)0.1462 (5)0.0634 (16)
C40.4392 (2)1.0232 (6)0.2741 (6)0.086 (2)
C50.4211 (2)0.8668 (6)0.2325 (6)0.085 (2)
C60.3456 (2)0.8519 (4)0.1711 (5)0.0586 (14)
C110.25621 (15)0.9481 (3)−0.0177 (3)0.0306 (9)
C210.30223 (16)1.1903 (4)0.1864 (3)0.0337 (10)
O41A−0.00706 (10)0.2052 (2)−0.0339 (2)0.0298 (7)
N1A0.13089 (14)0.6330 (3)−0.0339 (3)0.0293 (8)
N41A0.08655 (16)0.0589 (3)−0.0669 (3)0.0286 (8)
C2A0.11125 (16)0.5811 (3)−0.1821 (3)0.0290 (9)
C3A0.06735 (15)0.4418 (3)−0.1727 (3)0.0257 (9)
C4A0.10386 (14)0.3218 (3)−0.0845 (3)0.0251 (8)
C5A0.12773 (16)0.3800 (3)0.0645 (3)0.0292 (9)
C6A0.17115 (17)0.5201 (3)0.0524 (3)0.0325 (10)
C41A0.05649 (14)0.1901 (3)−0.0612 (3)0.0236 (8)
H10.361800.92850−0.033700.0430*
H20.350701.17570−0.006700.0400*
H220.288 (3)1.369 (5)0.281 (5)0.082 (15)*
H310.460201.098500.071000.0760*
H320.438601.225400.176400.0760*
H410.410001.054600.352700.1030*
H420.488001.028100.308500.1030*
H510.427100.804100.317500.1020*
H520.453400.832900.160400.1020*
H610.313000.871700.247400.0700*
H620.337800.751600.137600.0700*
H4A0.145300.28900−0.136000.0300*
H11A0.0869 (17)0.663 (3)0.007 (3)0.027 (8)*
H12A0.161 (2)0.722 (4)−0.035 (4)0.061 (11)*
H21A0.153400.56100−0.235200.0350*
H22A0.084500.65690−0.233900.0350*
H31A0.023000.46550−0.129100.0310*
H32A0.056900.40530−0.270200.0310*
H41A0.0623 (18)−0.017 (4)−0.045 (3)0.037 (10)*
H42A0.1263 (17)0.054 (3)−0.082 (3)0.017 (8)*
H51A0.086800.400100.121300.0350*
H52A0.155600.305100.115100.0350*
H61A0.182600.558300.148800.0390*
H62A0.214800.498100.005500.0390*
U11U22U33U12U13U23
O110.0398 (14)0.0352 (14)0.0811 (19)−0.0182 (11)−0.0039 (13)0.0027 (13)
O120.0305 (12)0.0545 (16)0.0393 (13)−0.0007 (11)−0.0015 (10)0.0068 (11)
O210.0385 (14)0.0496 (15)0.0590 (16)−0.0112 (11)0.0170 (12)−0.0067 (12)
O220.0473 (15)0.0479 (16)0.0512 (15)−0.0127 (12)0.0156 (12)−0.0159 (12)
C10.0240 (16)0.0363 (19)0.0483 (19)0.0031 (14)0.0016 (14)−0.0011 (15)
C20.0211 (15)0.0402 (19)0.0398 (18)−0.0042 (13)0.0006 (13)−0.0027 (14)
C30.028 (2)0.074 (3)0.088 (3)−0.0069 (19)−0.001 (2)−0.025 (2)
C40.043 (3)0.111 (5)0.102 (4)0.009 (3)−0.035 (3)−0.007 (3)
C50.053 (3)0.097 (4)0.103 (4)0.028 (3)−0.022 (3)0.026 (3)
C60.046 (2)0.047 (2)0.082 (3)0.0090 (18)−0.008 (2)0.020 (2)
C110.0273 (16)0.0242 (16)0.0403 (17)−0.0002 (13)−0.0005 (13)−0.0073 (14)
C210.0277 (17)0.0436 (19)0.0294 (16)−0.0014 (15)−0.0036 (13)−0.0003 (14)
O41A0.0228 (11)0.0265 (11)0.0401 (12)−0.0011 (9)0.0010 (9)0.0013 (9)
N1A0.0274 (15)0.0253 (14)0.0351 (14)0.0002 (12)−0.0004 (11)−0.0009 (11)
N41A0.0188 (14)0.0291 (15)0.0381 (15)−0.0049 (12)0.0026 (11)0.0020 (11)
C2A0.0288 (16)0.0317 (16)0.0264 (15)0.0014 (13)−0.0010 (12)0.0075 (13)
C3A0.0257 (15)0.0310 (16)0.0200 (14)−0.0011 (13)−0.0046 (11)0.0013 (12)
C4A0.0217 (14)0.0258 (15)0.0278 (15)0.0000 (12)−0.0006 (12)0.0001 (12)
C5A0.0326 (17)0.0284 (16)0.0259 (15)0.0002 (13)−0.0092 (12)0.0037 (12)
C6A0.0378 (18)0.0270 (16)0.0318 (16)−0.0027 (14)−0.0123 (13)0.0051 (13)
C41A0.0240 (15)0.0253 (15)0.0211 (14)−0.0014 (12)−0.0063 (11)0.0014 (12)
O11—C111.246 (4)C3—H310.9700
O12—C111.260 (4)C3—H320.9700
O21—C211.211 (4)C4—H420.9700
O22—C211.317 (4)C4—H410.9700
O22—H220.93 (5)C5—H520.9700
O41A—C41A1.250 (3)C5—H510.9700
N1A—C6A1.490 (4)C6—H620.9700
N1A—C2A1.478 (4)C6—H610.9700
N41A—C41A1.322 (4)C2A—C3A1.518 (4)
N1A—H12A0.99 (4)C3A—C4A1.511 (4)
N1A—H11A0.97 (3)C4A—C41A1.515 (4)
N41A—H41A0.86 (3)C4A—C5A1.523 (4)
N41A—H42A0.77 (3)C5A—C6A1.521 (4)
C1—C21.538 (5)C2A—H21A0.9700
C1—C61.537 (5)C2A—H22A0.9700
C1—C111.520 (4)C3A—H31A0.9700
C2—C31.531 (5)C3A—H32A0.9700
C2—C211.514 (5)C4A—H4A0.9800
C3—C41.505 (7)C5A—H51A0.9700
C4—C51.506 (8)C5A—H52A0.9700
C5—C61.530 (6)C6A—H61A0.9700
C1—H10.9800C6A—H62A0.9700
C2—H20.9800
C21—O22—H22111 (3)C4—C5—H51109.00
C2A—N1A—C6A112.4 (2)C4—C5—H52109.00
C6A—N1A—H11A114.9 (16)H51—C5—H52108.00
H11A—N1A—H12A106 (3)C6—C5—H52109.00
C6A—N1A—H12A106 (2)C1—C6—H62109.00
C2A—N1A—H12A112 (2)C1—C6—H61109.00
C2A—N1A—H11A104.7 (17)C5—C6—H62109.00
H41A—N41A—H42A122 (3)H61—C6—H62108.00
C41A—N41A—H42A119 (2)C5—C6—H61109.00
C41A—N41A—H41A119 (2)N1A—C2A—C3A109.5 (2)
C6—C1—C11112.5 (3)C2A—C3A—C4A112.7 (2)
C2—C1—C6112.1 (3)C3A—C4A—C41A112.3 (2)
C2—C1—C11112.6 (2)C5A—C4A—C41A107.8 (2)
C1—C2—C21112.7 (3)C3A—C4A—C5A110.5 (2)
C3—C2—C21110.6 (3)C4A—C5A—C6A111.6 (2)
C1—C2—C3111.2 (3)N1A—C6A—C5A110.1 (2)
C2—C3—C4112.0 (3)O41A—C41A—C4A121.7 (2)
C3—C4—C5110.8 (4)N41A—C41A—C4A116.3 (2)
C4—C5—C6112.3 (4)O41A—C41A—N41A121.9 (3)
C1—C6—C5111.4 (3)N1A—C2A—H21A110.00
O11—C11—O12123.5 (3)N1A—C2A—H22A110.00
O11—C11—C1118.6 (3)C3A—C2A—H21A110.00
O12—C11—C1118.0 (3)C3A—C2A—H22A110.00
O21—C21—C2124.3 (3)H21A—C2A—H22A108.00
O22—C21—C2112.7 (3)C2A—C3A—H31A109.00
O21—C21—O22123.0 (3)C2A—C3A—H32A109.00
C6—C1—H1106.00C4A—C3A—H31A109.00
C2—C1—H1106.00C4A—C3A—H32A109.00
C11—C1—H1106.00H31A—C3A—H32A108.00
C3—C2—H2107.00C3A—C4A—H4A109.00
C1—C2—H2107.00C5A—C4A—H4A109.00
C21—C2—H2107.00C41A—C4A—H4A109.00
C4—C3—H31109.00C4A—C5A—H51A109.00
C2—C3—H31109.00C4A—C5A—H52A109.00
H31—C3—H32108.00C6A—C5A—H51A109.00
C4—C3—H32109.00C6A—C5A—H52A109.00
C2—C3—H32109.00H51A—C5A—H52A108.00
C5—C4—H42109.00N1A—C6A—H61A110.00
C3—C4—H42110.00N1A—C6A—H62A110.00
H41—C4—H42108.00C5A—C6A—H61A110.00
C5—C4—H41110.00C5A—C6A—H62A110.00
C3—C4—H41109.00H61A—C6A—H62A108.00
C6—C5—H51109.00
C2A—N1A—C6A—C5A−58.9 (3)C3—C2—C21—O2259.5 (4)
C6A—N1A—C2A—C3A58.5 (3)C1—C2—C21—O212.3 (5)
C11—C1—C2—C3179.7 (3)C2—C3—C4—C557.2 (5)
C11—C1—C2—C2155.0 (4)C3—C4—C5—C6−56.7 (5)
C6—C1—C2—C21−73.1 (3)C4—C5—C6—C153.8 (5)
C11—C1—C6—C5−179.3 (3)N1A—C2A—C3A—C4A−55.6 (3)
C2—C1—C11—O11−137.0 (3)C2A—C3A—C4A—C5A53.0 (3)
C2—C1—C11—O1243.4 (4)C2A—C3A—C4A—C41A173.4 (2)
C6—C1—C11—O11−9.1 (4)C41A—C4A—C5A—C6A−175.6 (2)
C6—C1—C11—O12171.3 (3)C3A—C4A—C41A—O41A−40.5 (4)
C2—C1—C6—C5−51.1 (4)C3A—C4A—C41A—N41A141.6 (3)
C6—C1—C2—C351.7 (4)C5A—C4A—C41A—O41A81.5 (3)
C1—C2—C3—C4−54.8 (5)C5A—C4A—C41A—N41A−96.5 (3)
C21—C2—C3—C471.2 (4)C3A—C4A—C5A—C6A−52.5 (3)
C1—C2—C21—O22−175.4 (3)C4A—C5A—C6A—N1A55.2 (3)
C3—C2—C21—O21−122.8 (4)
D—H···AD—HH···AD···AD—H···A
N1A—H11A···O41Ai0.97 (3)1.95 (3)2.861 (3)155 (2)
N1A—H12A···O110.99 (4)1.64 (4)2.588 (4)158 (3)
N41A—H41A···O41Aii0.86 (3)2.14 (4)2.996 (3)174 (2)
N41A—H42A···O12iii0.77 (3)2.11 (3)2.882 (4)177 (3)
O22—H22···O12iv0.93 (5)1.64 (5)2.571 (3)173 (4)
C4A—H4A···O21v0.982.493.340 (4)145
C2A—H21A···O21v0.972.573.389 (4)143
C2A—H22A···O41Avi0.972.593.413 (3)143
C3—H32···O220.972.522.884 (5)102
C6A—H61A···O12vii0.972.583.351 (3)137
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1A—H11A⋯O41Ai0.97 (3)1.95 (3)2.861 (3)155 (2)
N1A—H12A⋯O110.99 (4)1.64 (4)2.588 (4)158 (3)
N41A—H41A⋯O41Aii0.86 (3)2.14 (4)2.996 (3)174 (2)
N41A—H42A⋯O12iii0.77 (3)2.11 (3)2.882 (4)177 (3)
O22—H22⋯O12iv0.93 (5)1.64 (5)2.571 (3)173 (4)

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

  6 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.  Hydrogen bonding in the anhydrous 1:1 proton-transfer compounds of isonipecotamide with nitro-substituted benzoic acids: the salts of the three isomeric mononitrobenzoic acids and of 3,5-dinitrobenzoic acid.

Authors:  Graham Smith; Urs D Wermuth
Journal:  Acta Crystallogr C       Date:  2010-11-19       Impact factor: 1.172

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.  4-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:  2011-09-30

6.  Structure validation in chemical crystallography.

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

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