Literature DB >> 24860357

2-(Tri-methyl-aza-nium-yl)ethyl hydrogen phosphate (phospho-choline) mono-hydrate.

Yohsuke Nikawa1, Kyoko Fujita2, Keiichi Noguchi3, Hiroyuki Ohno2.   

Abstract

In the crystal structure of the title compound, C5H14NO4P·H2O, the zwitterionic phospho-choline mol-ecules are connected by an O-H⋯O hydrogen bond between the phosphate groups, forming a zigzag chain along the b-axis direction. The chains are further connected through O-H⋯O hydrogen bonds involving water mol-ecules, forming a layer parallel to (101). Three and one C-H⋯O inter-actions are also observed in the layer and between the layers, respectively. The conformation of the N-C-C-O backbone is gauche with a torsion angle of -75.8 (2)°

Entities:  

Year:  2014        PMID: 24860357      PMCID: PMC4011268          DOI: 10.1107/S160053681400779X

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


Related literature

For related structures, see: Fujita et al. (2009 ▶); Pearson & Pascher (1979 ▶); McAlister et al. (1979 ▶).

Experimental

Crystal data

C5H14NO4P·H2O M = 201.16 Monoclinic, a = 10.4304 (2) Å b = 6.8873 (1) Å c = 13.4992 (3) Å β = 105.800 (1)° V = 933.11 (3) Å3 Z = 4 Cu Kα radiation μ = 2.59 mm−1 T = 193 K 0.60 × 0.40 × 0.40 mm

Data collection

Rigaku R-AXIS RAPID diffractometer Absorption correction: numerical (NUMABS; Rigaku, 1999 ▶) T min = 0.306, T max = 0.424 16036 measured reflections 1715 independent reflections 1632 reflections with I > 2σ(I) R int = 0.037

Refinement

R[F 2 > 2σ(F 2)] = 0.038 wR(F 2) = 0.101 S = 1.13 1715 reflections 121 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.21 e Å−3 Δρmin = −0.50 e Å−3 Data collection: PROCESS-AUTO (Rigaku, 2004 ▶); cell refinement: PROCESS-AUTO; data reduction: CrystalStructure (Rigaku, 2010 ▶); program(s) used to solve structure: Il Milione (Burla et al., 2007 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEPIII (Burnett & Johnson, 1996 ▶); software used to prepare material for publication: SHELXL97. Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S160053681400779X/is5344sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S160053681400779X/is5344Isup2.hkl Click here for additional data file. Supporting information file. DOI: 10.1107/S160053681400779X/is5344Isup3.cml CCDC reference: 996006 Additional supporting information: crystallographic information; 3D view; checkCIF report
C5H14NO4P·H2OF(000) = 432
Mr = 201.16Dx = 1.432 Mg m3
Monoclinic, P21/nCu Kα radiation, λ = 1.54187 Å
Hall symbol: -P 2ynCell parameters from 15511 reflections
a = 10.4304 (2) Åθ = 3.4–68.2°
b = 6.8873 (1) ŵ = 2.59 mm1
c = 13.4992 (3) ÅT = 193 K
β = 105.800 (1)°Block, colorless
V = 933.11 (3) Å30.60 × 0.40 × 0.40 mm
Z = 4
Rigaku R-AXIS RAPID diffractometer1715 independent reflections
Radiation source: rotating anode1632 reflections with I > 2σ(I)
Graphite monochromatorRint = 0.037
Detector resolution: 10.000 pixels mm-1θmax = 68.2°, θmin = 4.8°
ω scansh = −12→12
Absorption correction: numerical (NUMABS; Rigaku, 1999)k = −8→8
Tmin = 0.306, Tmax = 0.424l = −15→16
16036 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) = 0.101H atoms treated by a mixture of independent and constrained refinement
S = 1.13w = 1/[σ2(Fo2) + (0.0594P)2 + 0.4329P] where P = (Fo2 + 2Fc2)/3
1715 reflections(Δ/σ)max < 0.001
121 parametersΔρmax = 0.21 e Å3
0 restraintsΔρmin = −0.50 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
P10.19372 (4)−0.29328 (6)0.34891 (3)0.02017 (18)
O10.26794 (11)−0.11051 (17)0.41531 (9)0.0250 (3)
O20.11276 (14)−0.2045 (2)0.24371 (10)0.0340 (4)
H2O0.149 (3)−0.124 (4)0.219 (2)0.058 (8)*
O30.09520 (13)−0.3768 (2)0.39911 (10)0.0316 (3)
O40.30448 (13)−0.4207 (2)0.34008 (11)0.0341 (3)
N10.31816 (14)0.1794 (2)0.60363 (11)0.0216 (3)
C10.18974 (19)0.0567 (3)0.42416 (14)0.0304 (4)
H1A0.11860.01860.45610.036*
H1B0.14690.10910.35470.036*
C20.27544 (19)0.2105 (2)0.48844 (13)0.0264 (4)
H2A0.22660.33530.47460.032*
H2B0.35670.22450.46460.032*
C30.20152 (19)0.1449 (3)0.64541 (15)0.0340 (4)
H3A0.23100.14640.72080.041*
H3B0.16190.01840.62170.041*
H3C0.13510.24730.62110.041*
C40.4142 (2)0.0135 (3)0.63344 (15)0.0367 (5)
H4A0.3717−0.10620.60130.044*
H4B0.4401−0.00150.70850.044*
H4C0.49360.03990.61000.044*
C50.3865 (2)0.3617 (3)0.65134 (16)0.0355 (5)
H5A0.41930.34470.72610.043*
H5B0.32320.47010.63610.043*
H5C0.46160.38960.62300.043*
O50.58971 (16)0.8315 (2)0.10139 (12)0.0367 (4)
H5OA0.593 (3)0.838 (4)0.045 (2)0.043 (7)*
H5OB0.539 (3)0.905 (4)0.106 (2)0.046 (8)*
U11U22U33U12U13U23
P10.0221 (3)0.0191 (3)0.0200 (3)−0.00203 (15)0.00695 (18)−0.00011 (15)
O10.0229 (6)0.0223 (6)0.0273 (6)0.0025 (5)0.0025 (5)−0.0048 (5)
O20.0380 (8)0.0316 (8)0.0263 (7)−0.0155 (6)−0.0015 (6)0.0066 (5)
O30.0314 (7)0.0330 (7)0.0341 (7)−0.0039 (6)0.0151 (6)0.0046 (6)
O40.0311 (7)0.0313 (7)0.0423 (8)−0.0002 (6)0.0141 (6)−0.0127 (6)
N10.0195 (7)0.0220 (7)0.0227 (7)0.0027 (5)0.0046 (6)−0.0014 (5)
C10.0308 (9)0.0274 (10)0.0276 (9)0.0099 (8)−0.0012 (7)−0.0058 (7)
C20.0348 (10)0.0208 (9)0.0230 (9)0.0030 (7)0.0067 (7)0.0025 (6)
C30.0297 (10)0.0397 (11)0.0357 (10)−0.0025 (8)0.0144 (8)0.0026 (9)
C40.0380 (10)0.0382 (11)0.0292 (10)0.0194 (9)0.0013 (8)−0.0007 (8)
C50.0308 (10)0.0356 (11)0.0397 (11)−0.0083 (8)0.0087 (8)−0.0147 (9)
O50.0415 (9)0.0374 (8)0.0321 (8)0.0114 (7)0.0115 (7)0.0050 (6)
P1—O41.4812 (13)C2—H2A0.9900
P1—O31.4918 (13)C2—H2B0.9900
P1—O21.5655 (13)C3—H3A0.9800
P1—O11.6154 (12)C3—H3B0.9800
O1—C11.435 (2)C3—H3C0.9800
O2—H2O0.79 (3)C4—H4A0.9800
N1—C31.493 (2)C4—H4B0.9800
N1—C51.500 (2)C4—H4C0.9800
N1—C41.501 (2)C5—H5A0.9800
N1—C21.512 (2)C5—H5B0.9800
C1—C21.501 (2)C5—H5C0.9800
C1—H1A0.9900O5—H5OA0.77 (3)
C1—H1B0.9900O5—H5OB0.74 (3)
O4—P1—O3117.19 (8)C1—C2—H2B108.0
O4—P1—O2113.47 (8)N1—C2—H2B108.0
O3—P1—O2107.13 (8)H2A—C2—H2B107.2
O4—P1—O1103.88 (7)N1—C3—H3A109.5
O3—P1—O1109.49 (7)N1—C3—H3B109.5
O2—P1—O1104.93 (7)H3A—C3—H3B109.5
C1—O1—P1118.31 (10)N1—C3—H3C109.5
P1—O2—H2O117 (2)H3A—C3—H3C109.5
C3—N1—C5108.18 (14)H3B—C3—H3C109.5
C3—N1—C4109.31 (15)N1—C4—H4A109.5
C5—N1—C4108.53 (15)N1—C4—H4B109.5
C3—N1—C2111.65 (13)H4A—C4—H4B109.5
C5—N1—C2107.20 (14)N1—C4—H4C109.5
C4—N1—C2111.84 (14)H4A—C4—H4C109.5
O1—C1—C2110.62 (14)H4B—C4—H4C109.5
O1—C1—H1A109.5N1—C5—H5A109.5
C2—C1—H1A109.5N1—C5—H5B109.5
O1—C1—H1B109.5H5A—C5—H5B109.5
C2—C1—H1B109.5N1—C5—H5C109.5
H1A—C1—H1B108.1H5A—C5—H5C109.5
C1—C2—N1117.20 (15)H5B—C5—H5C109.5
C1—C2—H2A108.0H5OA—O5—H5OB105 (3)
N1—C2—H2A108.0
O4—P1—O1—C1170.10 (13)O1—C1—C2—N1−75.8 (2)
O3—P1—O1—C1−63.97 (14)C3—N1—C2—C1−54.4 (2)
O2—P1—O1—C150.72 (15)C5—N1—C2—C1−172.72 (15)
P1—O1—C1—C2179.94 (12)C4—N1—C2—C168.4 (2)
D—H···AD—HH···AD···AD—H···A
O2—H2O···O4i0.80 (3)1.74 (3)2.525 (2)167 (3)
O5—H5OA···O3ii0.77 (3)1.99 (3)2.764 (2)175 (3)
O5—H5OB···O3iii0.75 (3)2.04 (3)2.784 (2)172 (3)
C2—H2A···O3iv0.992.473.440 (2)167
C3—H3B···O5v0.982.523.479 (3)167
C3—H3C···O3vi0.982.513.388 (2)149
C5—H5C···O4vii0.982.363.219 (3)146
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯A D—HH⋯A DA D—H⋯A
O2—H2O⋯O4i 0.80 (3)1.74 (3)2.525 (2)167 (3)
O5—H5OA⋯O3ii 0.77 (3)1.99 (3)2.764 (2)175 (3)
O5—H5OB⋯O3iii 0.75 (3)2.04 (3)2.784 (2)172 (3)
C2—H2A⋯O3iv 0.992.473.440 (2)167
C3—H3B⋯O5v 0.982.523.479 (3)167
C3—H3C⋯O3vi 0.982.513.388 (2)149
C5—H5C⋯O4vii 0.982.363.219 (3)146

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

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2.  The molecular structure of lecithin dihydrate.

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Journal:  Nature       Date:  1979-10-11       Impact factor: 49.962

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