Literature DB >> 21579129

[1-(Carboxy-meth-yl)cyclo-hexyl]-methan-aminium dihydrogen phosphate.

Syed Naeem Razzaq, Islam Ullah Khan, Onur Sahin, Orhan Büyükgüngör.   

Abstract

In the title salt, C(9)H(18)NO(2) (+)·H(2)PO(4) (-), the cyclo-hexane ring is puckered, the total puckering amplitude Q(T) being 0.555 (4) Å, and an intra-molecular N-H⋯O hydrogen bond generates an S(7) ring. In the crystal structure, inter-molecular N-H⋯O and O-H⋯O hydrogen bonds lead to R(2) (2)(14), R(3) (3)(8) and R(4) (2)(8) rings, generating a two-dimensional layer.

Entities:  

Year:  2010        PMID: 21579129      PMCID: PMC2979205          DOI: 10.1107/S1600536810012973

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


Related literature

For related structures and medicinal background, see: Reece & Levendis (2008 ▶); Ibers (2001 ▶). For the graph-set analysis of hydrogen-bond patterns, see: Bernstein et al. (1995 ▶). For details of ring-puckering analysis, see: Cremer & Pople (1975 ▶). For bond-valence analysis and the positioning of H atoms, see: Brese & O’Keeffe (1991 ▶).

Experimental

Crystal data

C9H18NO2H2O4P M = 269.23 Orthorhombic, a = 10.473 (5) Å b = 9.269 (3) Å c = 26.468 (5) Å V = 2569.4 (16) Å3 Z = 8 Mo Kα radiation μ = 0.23 mm−1 T = 296 K 0.31 × 0.25 × 0.22 mm

Data collection

Bruker Kappa APEXII CCD diffractometer 14659 measured reflections 3185 independent reflections 1853 reflections with I > 2σ(I) R int = 0.071

Refinement

R[F 2 > 2σ(F 2)] = 0.051 wR(F 2) = 0.155 S = 1.06 3185 reflections 178 parameters 6 restraints H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.34 e Å−3 Δρmin = −0.45 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 ▶); software used to prepare material for publication: WinGX (Farrugia, 1999 ▶). Crystal structure: contains datablocks global, I. DOI: 10.1107/S1600536810012973/hb5398sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810012973/hb5398Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C9H18NO2+·H2O4PF(000) = 1152
Mr = 269.23Dx = 1.392 Mg m3
Orthorhombic, PbcaMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ac 2abCell parameters from 1923 reflections
a = 10.473 (5) Åθ = 3.0–21.6°
b = 9.269 (3) ŵ = 0.23 mm1
c = 26.468 (5) ÅT = 296 K
V = 2569.4 (16) Å3Prism, colourless
Z = 80.31 × 0.25 × 0.22 mm
Bruker Kappa APEXII CCD diffractometer1853 reflections with I > 2σ(I)
Radiation source: fine-focus sealed tubeRint = 0.071
graphiteθmax = 28.3°, θmin = 1.5°
φ and ω scansh = −13→7
14659 measured reflectionsk = −11→12
3185 independent reflectionsl = −35→35
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.051Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.155H atoms treated by a mixture of independent and constrained refinement
S = 1.06w = 1/[σ2(Fo2) + (0.0712P)2] where P = (Fo2 + 2Fc2)/3
3185 reflections(Δ/σ)max < 0.001
178 parametersΔρmax = 0.34 e Å3
6 restraintsΔρmin = −0.45 e Å3
Geometry. All esds (except the esd in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell esds are taken into account individually in the estimation of esds in distances, angles and torsion angles; correlations between esds in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell esds is used for estimating esds 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
C10.6575 (4)0.1582 (5)0.67421 (15)0.0667 (12)
H1A0.65690.23150.64810.080*
H1B0.74570.13340.68120.080*
C20.5874 (3)0.0253 (4)0.65538 (12)0.0413 (8)
H2A0.5967−0.05140.68010.050*
H2B0.6266−0.00700.62420.050*
C30.4441 (3)0.0522 (3)0.64599 (10)0.0301 (7)
C40.3859 (4)0.1206 (4)0.69378 (12)0.0477 (9)
H4A0.29830.14740.68660.057*
H4B0.38420.04850.72040.057*
C50.4563 (4)0.2527 (4)0.71319 (15)0.0667 (12)
H5A0.44890.33030.68880.080*
H5B0.41780.28470.74460.080*
C60.5961 (5)0.2189 (6)0.72201 (16)0.0874 (16)
H6A0.60390.14920.74920.105*
H6B0.64060.30610.73210.105*
C70.4205 (3)0.1584 (3)0.60270 (11)0.0329 (7)
H7A0.32930.16390.59660.040*
H7B0.44870.25330.61330.040*
C80.3736 (3)−0.0923 (3)0.63691 (13)0.0445 (9)
H8A0.3624−0.13950.66930.053*
H8B0.2891−0.07050.62390.053*
C90.4354 (3)−0.1977 (3)0.60166 (12)0.0343 (7)
N10.4845 (2)0.1225 (3)0.55463 (9)0.0296 (6)
H30.5685 (19)0.141 (4)0.5561 (14)0.067 (12)*
H40.473 (4)0.027 (2)0.5469 (13)0.069 (13)*
H50.454 (3)0.173 (4)0.5291 (11)0.066 (12)*
O50.4571 (2)−0.1736 (2)0.55742 (8)0.0417 (6)
O60.4610 (3)−0.3214 (3)0.62334 (10)0.0537 (7)
H60.500 (4)−0.373 (4)0.6027 (13)0.085 (15)*
O10.8667 (2)0.1053 (2)0.47674 (8)0.0366 (5)
H10.929 (3)0.066 (4)0.4646 (16)0.091 (16)*
O20.7236 (2)−0.0726 (2)0.51893 (10)0.0413 (6)
H20.739 (5)−0.149 (3)0.5316 (16)0.102 (18)*
O30.92807 (17)−0.00007 (19)0.56151 (7)0.0279 (5)
O40.74292 (18)0.17523 (19)0.55177 (8)0.0324 (5)
P10.81774 (6)0.05253 (7)0.52950 (3)0.0242 (2)
U11U22U33U12U13U23
C10.050 (2)0.093 (3)0.057 (2)−0.009 (2)−0.0153 (19)−0.020 (2)
C20.0434 (18)0.050 (2)0.0308 (17)0.0091 (16)−0.0039 (14)0.0055 (15)
C30.0353 (15)0.0273 (16)0.0277 (16)0.0039 (13)0.0068 (13)−0.0017 (12)
C40.064 (2)0.045 (2)0.0339 (19)0.0084 (18)0.0157 (17)−0.0015 (16)
C50.094 (3)0.063 (3)0.043 (2)0.002 (2)0.006 (2)−0.0247 (19)
C60.101 (4)0.106 (4)0.055 (3)−0.017 (3)−0.016 (3)−0.035 (3)
C70.0310 (15)0.0361 (18)0.0317 (16)0.0113 (13)0.0044 (13)0.0009 (13)
C80.0446 (19)0.0364 (19)0.052 (2)−0.0021 (15)0.0225 (17)−0.0022 (15)
C90.0320 (16)0.0271 (17)0.044 (2)−0.0051 (13)0.0077 (14)−0.0016 (14)
N10.0291 (14)0.0331 (16)0.0265 (14)0.0046 (12)0.0017 (11)0.0030 (12)
O50.0501 (14)0.0350 (13)0.0399 (14)0.0027 (10)0.0078 (11)−0.0013 (10)
O60.0788 (18)0.0353 (15)0.0471 (15)0.0119 (13)0.0221 (14)0.0026 (12)
O10.0325 (11)0.0383 (12)0.0391 (13)0.0121 (10)0.0096 (10)0.0117 (10)
O20.0331 (11)0.0184 (12)0.0724 (17)−0.0029 (9)−0.0180 (11)0.0081 (11)
O30.0233 (9)0.0249 (10)0.0356 (11)0.0022 (8)0.0001 (8)0.0001 (9)
O40.0273 (10)0.0182 (10)0.0516 (13)0.0048 (8)0.0121 (9)0.0033 (9)
P10.0193 (3)0.0157 (4)0.0377 (4)0.0022 (3)0.0025 (3)0.0031 (3)
C1—C21.519 (5)C7—N11.476 (4)
C1—C61.526 (6)C7—H7A0.9700
C1—H1A0.9700C7—H7B0.9700
C1—H1B0.9700C8—C91.498 (4)
C2—C31.541 (4)C8—H8A0.9700
C2—H2A0.9700C8—H8B0.9700
C2—H2B0.9700C9—O51.213 (3)
C3—C71.531 (4)C9—O61.310 (4)
C3—C41.541 (4)N1—H30.897 (18)
C3—C81.549 (4)N1—H40.912 (18)
C4—C51.519 (5)N1—H50.881 (18)
C4—H4A0.9700O6—H60.83 (4)
C4—H4B0.9700O1—P11.566 (2)
C5—C61.515 (6)O1—H10.817 (19)
C5—H5A0.9700O2—P11.548 (2)
C5—H5B0.9700O2—H20.799 (19)
C6—H6A0.9700O3—P11.513 (2)
C6—H6B0.9700O4—P11.502 (2)
C2—C1—C6111.5 (3)C5—C6—H6B109.5
C2—C1—H1A109.3C1—C6—H6B109.5
C6—C1—H1A109.3H6A—C6—H6B108.1
C2—C1—H1B109.3N1—C7—C3115.2 (2)
C6—C1—H1B109.3N1—C7—H7A108.5
H1A—C1—H1B108.0C3—C7—H7A108.5
C1—C2—C3113.1 (3)N1—C7—H7B108.5
C1—C2—H2A109.0C3—C7—H7B108.5
C3—C2—H2A109.0H7A—C7—H7B107.5
C1—C2—H2B109.0C9—C8—C3117.0 (2)
C3—C2—H2B109.0C9—C8—H8A108.0
H2A—C2—H2B107.8C3—C8—H8A108.0
C7—C3—C2112.5 (2)C9—C8—H8B108.0
C7—C3—C4106.6 (2)C3—C8—H8B108.0
C2—C3—C4108.6 (3)H8A—C8—H8B107.3
C7—C3—C8111.3 (3)O5—C9—O6123.0 (3)
C2—C3—C8110.5 (3)O5—C9—C8124.2 (3)
C4—C3—C8107.1 (2)O6—C9—C8112.7 (3)
C5—C4—C3114.7 (3)C7—N1—H3111 (2)
C5—C4—H4A108.6C7—N1—H4111 (2)
C3—C4—H4A108.6H3—N1—H4109 (3)
C5—C4—H4B108.6C7—N1—H5112 (2)
C3—C4—H4B108.6H3—N1—H5107 (3)
H4A—C4—H4B107.6H4—N1—H5107 (3)
C6—C5—C4110.7 (3)C9—O6—H6109 (3)
C6—C5—H5A109.5P1—O1—H1118 (3)
C4—C5—H5A109.5P1—O2—H2118 (3)
C6—C5—H5B109.5O4—P1—O3115.00 (12)
C4—C5—H5B109.5O4—P1—O2107.84 (12)
H5A—C5—H5B108.1O3—P1—O2110.23 (12)
C5—C6—C1110.8 (3)O4—P1—O1106.50 (11)
C5—C6—H6A109.5O3—P1—O1110.49 (12)
C1—C6—H6A109.5O2—P1—O1106.35 (14)
C6—C1—C2—C355.9 (4)C2—C1—C6—C5−56.5 (5)
C1—C2—C3—C765.8 (4)C2—C3—C7—N153.0 (4)
C1—C2—C3—C4−51.9 (4)C4—C3—C7—N1172.0 (3)
C1—C2—C3—C8−169.2 (3)C8—C3—C7—N1−71.5 (3)
C7—C3—C4—C5−69.4 (4)C7—C3—C8—C980.2 (3)
C2—C3—C4—C552.0 (4)C2—C3—C8—C9−45.5 (4)
C8—C3—C4—C5171.4 (3)C4—C3—C8—C9−163.7 (3)
C3—C4—C5—C6−54.9 (4)C3—C8—C9—O5−61.3 (4)
C4—C5—C6—C155.2 (5)C3—C8—C9—O6120.4 (3)
D—H···AD—HH···AD···AD—H···A
O6—H6···O3i0.83 (4)1.77 (2)2.602 (3)173 (4)
O1—H1···O3ii0.82 (2)1.76 (2)2.569 (3)173 (5)
N1—H5···O1iii0.88 (2)2.26 (3)2.929 (4)133 (3)
N1—H5···O2iv0.88 (2)2.44 (3)2.959 (3)118 (3)
N1—H5···O5iv0.88 (2)2.47 (3)3.065 (3)125 (3)
N1—H4···O50.91 (2)1.89 (2)2.760 (4)158 (3)
N1—H3···O40.90 (2)1.86 (2)2.752 (3)174 (3)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
O6—H6⋯O3i0.83 (4)1.77 (2)2.602 (3)173 (4)
O1—H1⋯O3ii0.82 (2)1.76 (2)2.569 (3)173 (5)
N1—H5⋯O1iii0.88 (2)2.26 (3)2.929 (4)133 (3)
N1—H5⋯O2iv0.88 (2)2.44 (3)2.959 (3)118 (3)
N1—H5⋯O5iv0.88 (2)2.47 (3)3.065 (3)125 (3)
N1—H4⋯O50.91 (2)1.89 (2)2.760 (4)158 (3)
N1—H3⋯O40.90 (2)1.86 (2)2.752 (3)174 (3)

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

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