Literature DB >> 22590308

1,3-Diammonio-1,2,3-tride-oxy-cis-inositol sulfate.

Christian Neis1, Günter J Merten, Kaspar Hegetschweiler.   

Abstract

In the crystal structure of the title compound, C(6)H(16)N(2)O(3) (2+)·SO(4) (2-), each cation forms three O-H⋯O and five N-H⋯O hydrogen bonds to six neighbouring sulfate anions. In addition, interlinking of the cations by N-H⋯O interactions is also observed. The cyclo-hexane ring adopts a chair conformation with two axial hy-droxy groups. Although the separation of 2.928 Å is almost ideal for a hydrogen bond, intra-molecular hydrogen bonding between these two hy-droxy groups is not observed.

Entities:  

Year:  2012        PMID: 22590308      PMCID: PMC3344546          DOI: 10.1107/S1600536812016029

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


Related literature

The synthesis of the chloride salt, as well as formation of a CuII complex of 1,3-diamino-1,2,3-tride­oxy-cis-inositol, was reported by Merten et al. (2012 ▶). A crystal structure deter­min­ation of the chloride salt was performed by Neis et al. (2012 ▶). The importance of intra­molecular hydrogen bonding in syn-1,3,5-tris­ubstituted cyclo­hexane derivatives has been discussed by Gencheva et al. (2000 ▶), Kramer et al. (1998 ▶), Kuppert et al. (2006 ▶), and Neis et al. (2010 ▶). Puckering parameters were calculated according to Cremer & Pople (1975 ▶). For the treatment of hydrogen atoms in SHELXL, see: Müller et al. (2006 ▶).

Experimental

Crystal data

C6H16N2O3 2+·SO4 2− M = 260.27 Monoclinic, a = 9.2151 (18) Å b = 6.6673 (13) Å c = 17.267 (4) Å β = 101.46 (3)° V = 1039.7 (4) Å3 Z = 4 Mo Kα radiation μ = 0.34 mm−1 T = 200 K 0.30 × 0.20 × 0.15 mm

Data collection

Stoe IPDS image plate diffractometer 6961 measured reflections 1779 independent reflections 1685 reflections with I > 2σ(I) R int = 0.035

Refinement

R[F 2 > 2σ(F 2)] = 0.026 wR(F 2) = 0.066 S = 1.06 1779 reflections 172 parameters 9 restraints H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.27 e Å−3 Δρmin = −0.29 e Å−3 Data collection: IPDS Software (Stoe & Cie, 1997 ▶); cell refinement: IPDS Software; data reduction: IPDS Software; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: DIAMOND (Brandenburg, 2011 ▶); software used to prepare material for publication: SHELXL97 and PLATON (Spek, 2009 ▶). Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536812016029/bx2402sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812016029/bx2402Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
C6H16N2O32+·SO42F(000) = 552
Mr = 260.27Dx = 1.663 Mg m3
Monoclinic, P21/nMo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2ynCell parameters from 3837 reflections
a = 9.2151 (18) Åθ = 2.6–25.0°
b = 6.6673 (13) ŵ = 0.34 mm1
c = 17.267 (4) ÅT = 200 K
β = 101.46 (3)°Prism, colourless
V = 1039.7 (4) Å30.30 × 0.20 × 0.15 mm
Z = 4
Stoe IPDS image plate diffractometer1685 reflections with I > 2σ(I)
Radiation source: fine-focus sealed tubeRint = 0.035
Graphite monochromatorθmax = 25.0°, θmin = 2.3°
phi scansh = −10→10
6961 measured reflectionsk = −7→7
1779 independent reflectionsl = −20→20
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.026Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.066H atoms treated by a mixture of independent and constrained refinement
S = 1.06w = 1/[σ2(Fo2) + (0.0259P)2 + 0.7072P] where P = (Fo2 + 2Fc2)/3
1779 reflections(Δ/σ)max = 0.001
172 parametersΔρmax = 0.27 e Å3
9 restraintsΔρmin = −0.29 e Å3
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
C50.44604 (15)−0.0876 (2)0.10574 (8)0.0129 (3)
H50.4373−0.13990.05070.015*
C60.35712 (15)−0.2238 (2)0.15088 (8)0.0149 (3)
H6A0.3961−0.36240.15210.018*
H6B0.3684−0.17620.20610.018*
C20.12716 (15)−0.0111 (2)0.10691 (8)0.0139 (3)
H20.0241−0.01710.07490.017*
C10.19415 (15)−0.2228 (2)0.11143 (8)0.0136 (3)
H10.1839−0.27680.05660.016*
C30.22081 (16)0.1251 (2)0.06417 (8)0.0137 (3)
H30.21170.07220.00920.016*
C40.38668 (15)0.1297 (2)0.10194 (8)0.0126 (3)
H40.43960.21050.06740.015*
N10.11358 (15)−0.3591 (2)0.15750 (8)0.0171 (3)
H1A0.124 (2)−0.325 (3)0.2070 (9)0.026*
H1B0.142 (2)−0.481 (2)0.1514 (10)0.026*
H1C0.0204 (17)−0.360 (3)0.1393 (10)0.026*
N50.60555 (14)−0.09248 (19)0.14663 (8)0.0151 (3)
H5A0.6514 (19)0.006 (3)0.1269 (10)0.023*
H5B0.612 (2)−0.084 (3)0.1971 (9)0.023*
H5C0.642 (2)−0.208 (2)0.1385 (10)0.023*
O40.41236 (12)0.21890 (16)0.17886 (6)0.0177 (2)
H4O0.4859 (19)0.294 (3)0.1786 (11)0.027*
O20.12055 (12)0.05338 (16)0.18490 (6)0.0188 (2)
H2O0.0491 (19)0.137 (3)0.1815 (11)0.028*
O30.15853 (12)0.32218 (16)0.05817 (6)0.0206 (2)
H3O0.171 (2)0.369 (3)0.0137 (9)0.031*
S10.77047 (4)0.40360 (5)0.132375 (19)0.01264 (13)
O70.80382 (13)0.58885 (16)0.09000 (6)0.0268 (3)
O80.90424 (11)0.34825 (16)0.19086 (6)0.0201 (2)
O50.72807 (12)0.23732 (16)0.07600 (6)0.0221 (3)
O60.65015 (12)0.45266 (18)0.17466 (7)0.0294 (3)
U11U22U33U12U13U23
C50.0114 (7)0.0124 (7)0.0148 (7)−0.0003 (5)0.0022 (5)−0.0010 (5)
C60.0148 (7)0.0096 (7)0.0200 (7)−0.0004 (5)0.0027 (5)0.0025 (5)
C20.0112 (7)0.0156 (7)0.0142 (6)0.0004 (5)0.0008 (5)−0.0008 (5)
C10.0151 (7)0.0118 (7)0.0146 (6)−0.0038 (5)0.0043 (5)−0.0007 (5)
C30.0165 (7)0.0106 (7)0.0137 (6)0.0026 (5)0.0024 (5)0.0004 (5)
C40.0150 (7)0.0104 (7)0.0131 (6)−0.0017 (5)0.0044 (5)−0.0001 (5)
N10.0178 (7)0.0142 (6)0.0205 (7)−0.0052 (5)0.0067 (5)−0.0017 (5)
N50.0129 (6)0.0132 (6)0.0191 (6)0.0008 (5)0.0032 (5)−0.0012 (5)
O40.0199 (5)0.0158 (5)0.0179 (5)−0.0065 (4)0.0045 (4)−0.0047 (4)
O20.0209 (6)0.0195 (5)0.0172 (5)0.0050 (4)0.0069 (4)−0.0003 (4)
O30.0269 (6)0.0136 (5)0.0223 (5)0.0083 (4)0.0073 (4)0.0046 (4)
S10.0110 (2)0.01085 (19)0.0156 (2)−0.00160 (12)0.00125 (13)0.00023 (12)
O70.0345 (7)0.0183 (6)0.0244 (6)−0.0064 (5)−0.0017 (5)0.0082 (4)
O80.0183 (5)0.0207 (5)0.0193 (5)0.0035 (4)−0.0009 (4)0.0023 (4)
O50.0255 (6)0.0209 (6)0.0205 (5)−0.0077 (4)0.0055 (4)−0.0057 (4)
O60.0168 (6)0.0289 (6)0.0455 (7)−0.0041 (5)0.0134 (5)−0.0149 (5)
C5—N51.4993 (18)C4—O41.4312 (17)
C5—C61.5355 (19)C4—H41.0000
C5—C41.5454 (19)N1—H1A0.870 (14)
C5—H51.0000N1—H1B0.867 (15)
C6—C11.521 (2)N1—H1C0.853 (15)
C6—H6A0.9900N5—H5A0.885 (15)
C6—H6B0.9900N5—H5B0.864 (14)
C2—O21.4265 (17)N5—H5C0.866 (15)
C2—C11.536 (2)O4—H4O0.845 (15)
C2—C31.5386 (19)O2—H2O0.855 (15)
C2—H21.0000O3—H3O0.856 (15)
C1—N11.4985 (18)S1—O51.4758 (11)
C1—H11.0000S1—O81.4768 (11)
C3—O31.4297 (17)S1—O61.4802 (12)
C3—C41.538 (2)S1—O71.4982 (11)
C3—H31.0000
N5—C5—C6108.67 (11)C2—C3—H3107.4
N5—C5—C4110.25 (11)O4—C4—C3111.66 (11)
C6—C5—C4110.85 (11)O4—C4—C5110.99 (11)
N5—C5—H5109.0C3—C4—C5108.20 (11)
C6—C5—H5109.0O4—C4—H4108.6
C4—C5—H5109.0C3—C4—H4108.6
C1—C6—C5110.43 (11)C5—C4—H4108.6
C1—C6—H6A109.6C1—N1—H1A113.0 (13)
C5—C6—H6A109.6C1—N1—H1B108.2 (12)
C1—C6—H6B109.6H1A—N1—H1B112.8 (17)
C5—C6—H6B109.6C1—N1—H1C112.2 (13)
H6A—C6—H6B108.1H1A—N1—H1C105.8 (18)
O2—C2—C1108.74 (11)H1B—N1—H1C104.5 (18)
O2—C2—C3114.09 (11)C5—N5—H5A107.5 (12)
C1—C2—C3107.97 (11)C5—N5—H5B109.5 (12)
O2—C2—H2108.6H5A—N5—H5B113.7 (16)
C1—C2—H2108.6C5—N5—H5C108.8 (12)
C3—C2—H2108.6H5A—N5—H5C111.5 (17)
N1—C1—C6107.99 (11)H5B—N5—H5C105.7 (17)
N1—C1—C2110.35 (12)C4—O4—H4O103.2 (12)
C6—C1—C2112.20 (11)C2—O2—H2O107.9 (12)
N1—C1—H1108.7C3—O3—H3O106.1 (13)
C6—C1—H1108.7O5—S1—O8109.81 (7)
C2—C1—H1108.7O5—S1—O6111.42 (6)
O3—C3—C4111.27 (11)O8—S1—O6108.86 (7)
O3—C3—C2108.78 (11)O5—S1—O7110.50 (6)
C4—C3—C2114.41 (11)O8—S1—O7108.39 (6)
O3—C3—H3107.4O6—S1—O7107.77 (7)
C4—C3—H3107.4
N5—C5—C6—C1179.85 (11)O2—C2—C3—C465.11 (15)
C4—C5—C6—C158.54 (15)C1—C2—C3—C4−55.89 (14)
C5—C6—C1—N1179.52 (11)O3—C3—C4—O458.04 (15)
C5—C6—C1—C2−58.64 (15)C2—C3—C4—O4−65.75 (15)
O2—C2—C1—N151.84 (14)O3—C3—C4—C5−179.54 (11)
C3—C2—C1—N1176.11 (10)C2—C3—C4—C556.67 (15)
O2—C2—C1—C6−68.64 (14)N5—C5—C4—O4−53.77 (15)
C3—C2—C1—C655.63 (14)C6—C5—C4—O466.61 (14)
O2—C2—C3—O3−60.00 (15)N5—C5—C4—C3−176.61 (11)
C1—C2—C3—O3179.00 (10)C6—C5—C4—C3−56.23 (15)
D—H···AD—HH···AD···AD—H···A
N1—H1A···O4i0.87 (1)2.09 (2)2.9292 (17)163 (2)
N1—H1B···O3ii0.87 (2)2.11 (2)2.8125 (18)138 (2)
N1—H1C···O7iii0.85 (2)2.04 (2)2.882 (2)170 (2)
N5—H5A···O50.89 (2)1.97 (2)2.8538 (17)173 (2)
N5—H5B···O8iv0.86 (1)2.02 (2)2.8530 (18)162 (2)
N5—H5C···O7ii0.87 (2)2.29 (2)3.0852 (18)153 (2)
N5—H5C···O6ii0.87 (2)2.34 (2)3.0856 (19)144 (2)
O4—H4O···O60.85 (2)1.86 (2)2.7017 (16)177 (2)
O2—H2O···O8v0.86 (2)1.97 (2)2.8161 (15)170 (2)
O3—H3O···O7vi0.86 (2)1.87 (2)2.7149 (16)167 (2)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1A⋯O4i0.87 (1)2.09 (2)2.9292 (17)163 (2)
N1—H1B⋯O3ii0.87 (2)2.11 (2)2.8125 (18)138 (2)
N1—H1C⋯O7iii0.85 (2)2.04 (2)2.882 (2)170 (2)
N5—H5A⋯O50.89 (2)1.97 (2)2.8538 (17)173 (2)
N5—H5B⋯O8iv0.86 (1)2.02 (2)2.8530 (18)162 (2)
N5—H5C⋯O7ii0.87 (2)2.29 (2)3.0852 (18)153 (2)
N5—H5C⋯O6ii0.87 (2)2.34 (2)3.0856 (19)144 (2)
O4—H4O⋯O60.85 (2)1.86 (2)2.7017 (16)177 (2)
O2—H2O⋯O8v0.86 (2)1.97 (2)2.8161 (15)170 (2)
O3—H3O⋯O7vi0.86 (2)1.87 (2)2.7149 (16)167 (2)

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

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2.  A short history of SHELX.

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3.  Derivatives of 1,3,5-triamino-1,3,5-trideoxy-cis-inositol as versatile pentadentate ligands for protein labeling with Re-186/188. prelabeling, biodistribution, and X-ray structural studies.

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4.  Redetermination of 1,3-diammonio-1,2,3-tride-oxy-cis-inositol dichloride.

Authors:  Christian Neis; Günter J Merten; Philipp Altenhofer; Kaspar Hegetschweiler
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-04-18

5.  Structure validation in chemical crystallography.

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1.  Tris(cis-2-hy-droxy-cyclo-hexane-1,3,5-tri-aminium) hydrogen sulfate octa-chloride dihydrate.

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Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-05-26

2.  Redetermination of 1,3-diammonio-1,2,3-tride-oxy-cis-inositol dichloride.

Authors:  Christian Neis; Günter J Merten; Philipp Altenhofer; Kaspar Hegetschweiler
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-04-18
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