Literature DB >> 21583639

Ammonium dihydrogen (1-ammonio-pentane-1,1-di-yl)diphospho-nate.

Anatolij Dudko1, Volodimir Bon, Alexandra Kozachkova, Vasily Pekhnyo.   

Abstract

The title compound, NH(4) (+)·C(5)H(14)NO(6)P(2) (-), was obtained from 1-ammonio-1-phosphono-pentane-1-phospho-nic acid and ammonium hydroxide in aqueous solution. The asymmetric unit of title compound contains one molecule, which consists of an ammonium cation and an aminodiphosphonic anion with the H atoms transferred from the phosphonic acid group to the amino group. The crystal structure shows a three-dimensional network of O-H⋯O and N-H⋯O hydrogen bonds which stabilize the structure.

Entities:  

Year:  2009        PMID: 21583639      PMCID: PMC2977313          DOI: 10.1107/S1600536809028323

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


Related literature

For general background to the use of organic diphospho­nic acids as chelating agents in metal extraction and as drugs to prevent calcification and inhibit bone resorption, see: Matczak-Jon & Videnova-Adrabinska (2005 ▶); Tromelin et al. (1986 ▶); Szabo et al. (2002 ▶). For related structures, see: Bon et al. (2008 ▶). For bond–length data, see: Allen et al. (1987 ▶).

Experimental

Crystal data

NH4C5H14NO6P2 M = 264.15 Monoclinic, a = 9.6007 (6) Å b = 5.7239 (4) Å c = 20.3259 (15) Å β = 98.100 (3)° V = 1105.84 (13) Å3 Z = 4 Mo Kα radiation μ = 0.41 mm−1 T = 296 K 0.50 × 0.12 × 0.04 mm

Data collection

Bruker APEXII CCD diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2005 ▶) T min = 0.824, T max = 0.982 5297 measured reflections 2256 independent reflections 1532 reflections with I > 2σ(I) R int = 0.056

Refinement

R[F 2 > 2σ(F 2)] = 0.051 wR(F 2) = 0.122 S = 1.02 2256 reflections 173 parameters H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.37 e Å−3 Δρmin = −0.38 e Å−3 Data collection: APEX2 (Bruker, 2005 ▶); cell refinement: SAINT (Bruker, 2005 ▶); data reduction: SAINT; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: SHELXTL (Sheldrick, 2008 ▶); software used to prepare material for publication: publCIF (Westrip, 2009 ▶). Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536809028323/rk2155sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536809028323/rk2155Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
NH4+·C5H14NO6P2F(000) = 560
Mr = 264.15Dx = 1.587 Mg m3
Monoclinic, P21/cMelting point: 495 K
Hall symbol: -P 2ybcMo Kα radiation, λ = 0.71073 Å
a = 9.6007 (6) ÅCell parameters from 824 reflections
b = 5.7239 (4) Åθ = 2.7–21.1°
c = 20.3259 (15) ŵ = 0.41 mm1
β = 98.100 (3)°T = 296 K
V = 1105.84 (13) Å3Needle, colourless
Z = 40.50 × 0.12 × 0.04 mm
Bruker APEXII CCD diffractometer2256 independent reflections
Radiation source: fine–focus sealed tube1532 reflections with I > 2σ(I)
graphiteRint = 0.056
Detector resolution: 8.26 pixels mm-1θmax = 26.4°, θmin = 2.0°
φ and ω scansh = −11→11
Absorption correction: multi-scan (SADABS; Bruker, 2005)k = −7→5
Tmin = 0.824, Tmax = 0.982l = −24→25
5297 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)] = 0.051Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.122H atoms treated by a mixture of independent and constrained refinement
S = 1.02w = 1/[σ2(Fo2) + (0.0435P)2 + 0.4298P] where P = (Fo2 + 2Fc2)/3
2256 reflections(Δ/σ)max < 0.001
173 parametersΔρmax = 0.37 e Å3
0 restraintsΔρmin = −0.38 e Å3
Geometry. All s.u.'s (except the s.u. in the dihedral angle between two l.s. planes) are estimated using the full covariance matrix. The cell s.u.'s are taken into account individually in the estimation of s.u.'s in distances, angles and torsion angles; correlations between s.u.'s in cell parameters are only used when they are defined by crystal symmetry. An approximate (isotropic) treatment of cell s.u.'s is used for estimating s.u.'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 > 2σ(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
P10.22481 (10)0.43513 (17)0.29915 (4)0.0195 (3)
P20.00587 (9)0.47871 (16)0.39608 (4)0.0184 (2)
C10.1590 (3)0.3149 (6)0.37310 (16)0.0161 (7)
C20.2832 (4)0.3109 (7)0.43011 (17)0.0243 (8)
H2A0.36350.24390.41290.029*
H2B0.30700.47150.44210.029*
C30.2649 (4)0.1806 (7)0.49344 (17)0.0295 (9)
H3A0.17870.23160.50880.035*
H3B0.25670.01460.48410.035*
C40.3877 (4)0.2227 (8)0.54735 (18)0.0374 (11)
H4A0.38850.38600.56020.045*
H4B0.47450.19090.52970.045*
C50.3827 (5)0.0731 (9)0.6084 (2)0.0506 (13)
H5A0.29850.10740.62710.076*
H5B0.46340.10590.64070.076*
H5C0.3831−0.08890.59620.076*
N10.1106 (3)0.0689 (5)0.35619 (16)0.0200 (7)
N20.3682 (4)0.9144 (7)0.2109 (2)0.0297 (8)
O10.3514 (2)0.2924 (4)0.28929 (11)0.0247 (6)
O20.2493 (3)0.6898 (4)0.31012 (12)0.0279 (6)
O30.1056 (3)0.3928 (5)0.23993 (12)0.0282 (7)
O4−0.0725 (3)0.2932 (4)0.43385 (13)0.0263 (6)
O5−0.0902 (2)0.5374 (5)0.33383 (12)0.0280 (6)
O60.0601 (3)0.6800 (4)0.43945 (11)0.0237 (6)
H3O0.107 (5)0.279 (9)0.217 (2)0.065 (18)*
H4O−0.061 (5)0.303 (9)0.475 (2)0.070 (18)*
H11N0.180 (4)−0.059 (7)0.3428 (19)0.047 (12)*
H12N0.078 (5)−0.001 (8)0.392 (2)0.060 (14)*
H13N0.038 (4)0.063 (7)0.321 (2)0.040 (12)*
H21N0.336 (5)0.810 (9)0.247 (3)0.083 (18)*
H22N0.449 (5)0.874 (7)0.2012 (19)0.040 (13)*
H23N0.295 (6)0.919 (10)0.176 (3)0.10 (2)*
H24N0.377 (5)1.058 (8)0.231 (2)0.048 (14)*
U11U22U33U12U13U23
P10.0216 (5)0.0158 (5)0.0220 (5)−0.0005 (4)0.0066 (4)0.0005 (4)
P20.0181 (5)0.0165 (5)0.0213 (5)0.0008 (4)0.0054 (4)0.0007 (4)
C10.0180 (17)0.0085 (18)0.0212 (17)−0.0008 (15)0.0006 (14)0.0005 (13)
C20.0189 (18)0.026 (2)0.0263 (19)−0.0043 (17)−0.0025 (15)−0.0006 (16)
C30.028 (2)0.034 (3)0.0250 (19)−0.002 (2)0.0005 (17)0.0037 (17)
C40.037 (2)0.043 (3)0.029 (2)0.004 (2)−0.0054 (19)0.0001 (19)
C50.052 (3)0.068 (4)0.030 (2)0.011 (3)0.000 (2)0.007 (2)
N10.0237 (16)0.0152 (17)0.0211 (16)−0.0026 (14)0.0028 (14)−0.0007 (13)
N20.026 (2)0.026 (2)0.040 (2)0.0035 (18)0.0115 (18)0.0002 (17)
O10.0194 (13)0.0244 (15)0.0314 (13)0.0026 (12)0.0074 (11)−0.0023 (11)
O20.0360 (15)0.0154 (15)0.0347 (14)−0.0015 (13)0.0132 (12)−0.0007 (11)
O30.0297 (15)0.0329 (18)0.0216 (13)0.0049 (14)0.0019 (12)−0.0045 (13)
O40.0315 (15)0.0229 (16)0.0265 (15)−0.0089 (12)0.0108 (12)−0.0013 (12)
O50.0198 (12)0.0329 (17)0.0305 (14)0.0030 (12)0.0002 (11)0.0063 (12)
O60.0317 (14)0.0131 (14)0.0278 (13)−0.0043 (12)0.0097 (11)−0.0040 (10)
P1—O21.488 (3)C4—C51.514 (5)
P1—O11.501 (2)C4—H4A0.9700
P1—O31.559 (3)C4—H4B0.9700
P1—C11.844 (3)C5—H5A0.9600
P2—O51.495 (2)C5—H5B0.9600
P2—O61.499 (2)C5—H5C0.9600
P2—O41.564 (3)N1—H11N1.05 (4)
P2—C11.858 (3)N1—H12N0.93 (5)
C1—N11.507 (4)N1—H13N0.93 (4)
C1—C21.541 (5)N2—H21N1.02 (6)
C2—C31.519 (5)N2—H22N0.86 (4)
C2—H2A0.9700N2—H23N0.93 (6)
C2—H2B0.9700N2—H24N0.92 (5)
C3—C41.511 (5)O3—H3O0.80 (5)
C3—H3A0.9700O4—H4O0.82 (5)
C3—H3B0.9700
O2—P1—O1116.04 (14)C2—C3—H3B109.4
O2—P1—O3110.56 (16)H3A—C3—H3B108.0
O1—P1—O3109.44 (15)C3—C4—C5113.1 (4)
O2—P1—C1107.97 (15)C3—C4—H4A109.0
O1—P1—C1106.42 (15)C5—C4—H4A109.0
O3—P1—C1105.83 (15)C3—C4—H4B109.0
O5—P2—O6116.53 (15)C5—C4—H4B109.0
O5—P2—O4106.61 (15)H4A—C4—H4B107.8
O6—P2—O4112.60 (14)C4—C5—H5A109.5
O5—P2—C1108.42 (14)C4—C5—H5B109.5
O6—P2—C1108.33 (14)H5A—C5—H5B109.5
O4—P2—C1103.51 (14)C4—C5—H5C109.5
N1—C1—C2109.8 (3)H5A—C5—H5C109.5
N1—C1—P1107.0 (2)H5B—C5—H5C109.5
C2—C1—P1107.5 (2)C1—N1—H11N122 (2)
N1—C1—P2107.4 (2)C1—N1—H12N110 (3)
C2—C1—P2112.0 (2)H11N—N1—H12N101 (3)
P1—C1—P2113.01 (17)C1—N1—H13N113 (2)
C3—C2—C1118.3 (3)H11N—N1—H13N102 (3)
C3—C2—H2A107.7H12N—N1—H13N107 (4)
C1—C2—H2A107.7H21N—N2—H22N112 (4)
C3—C2—H2B107.7H21N—N2—H23N107 (4)
C1—C2—H2B107.7H22N—N2—H23N116 (4)
H2A—C2—H2B107.1H21N—N2—H24N103 (4)
C4—C3—C2111.4 (3)H22N—N2—H24N108 (4)
C4—C3—H3A109.4H23N—N2—H24N109 (4)
C2—C3—H3A109.4P1—O3—H3O120 (4)
C4—C3—H3B109.4P2—O4—H4O116 (4)
O2—P1—C1—N1170.1 (2)O5—P2—C1—C2162.9 (2)
O1—P1—C1—N1−64.7 (2)O6—P2—C1—C235.6 (3)
O3—P1—C1—N151.7 (3)O4—P2—C1—C2−84.2 (3)
O2—P1—C1—C2−72.0 (3)O5—P2—C1—P141.3 (2)
O1—P1—C1—C253.2 (3)O6—P2—C1—P1−86.01 (19)
O3—P1—C1—C2169.6 (2)O4—P2—C1—P1154.25 (17)
O2—P1—C1—P252.1 (2)N1—C1—C2—C3−53.3 (4)
O1—P1—C1—P2177.27 (16)P1—C1—C2—C3−169.4 (3)
O3—P1—C1—P2−66.4 (2)P2—C1—C2—C365.9 (4)
O5—P2—C1—N1−76.5 (2)C1—C2—C3—C4−171.9 (3)
O6—P2—C1—N1156.2 (2)C2—C3—C4—C5−172.9 (3)
O4—P2—C1—N136.4 (2)
D—H···AD—HH···AD···AD—H···A
N1—H11N···O2i1.05 (4)1.75 (4)2.777 (4)163 (3)
N1—H13N···O3ii0.93 (4)1.98 (4)2.828 (4)152 (3)
N1—H12N···O6i0.93 (5)2.08 (5)2.879 (4)143 (4)
O3—H3O···O5ii0.80 (5)1.72 (5)2.519 (4)174 (5)
O4—H4O···O6iii0.82 (5)1.75 (5)2.566 (3)173 (5)
N2—H22N···O1iv0.86 (4)1.95 (4)2.781 (4)161 (4)
N2—H21N···O21.02 (6)1.77 (6)2.769 (4)165 (4)
N2—H23N···O5v0.93 (6)2.07 (6)2.787 (5)134 (5)
N2—H24N···O1vi0.92 (5)1.83 (5)2.705 (5)159 (4)
Table 1

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H11N⋯O2i1.05 (4)1.75 (4)2.777 (4)163 (3)
N1—H13N⋯O3ii0.93 (4)1.98 (4)2.828 (4)152 (3)
N1—H12N⋯O6i0.93 (5)2.08 (5)2.879 (4)143 (4)
O3—H3O⋯O5ii0.80 (5)1.72 (5)2.519 (4)174 (5)
O4—H4O⋯O6iii0.82 (5)1.75 (5)2.566 (3)173 (5)
N2—H22N⋯O1iv0.86 (4)1.95 (4)2.781 (4)161 (4)
N2—H21N⋯O21.02 (6)1.77 (6)2.769 (4)165 (4)
N2—H23N⋯O5v0.93 (6)2.07 (6)2.787 (5)134 (5)
N2—H24N⋯O1vi0.92 (5)1.83 (5)2.705 (5)159 (4)

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

  3 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.  1-Ammonio-1-phosphono-pentane-1-phospho-nic acid.

Authors:  V V Bon; A V Dudko; A N Kozachkova; V I Pekhnyo
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2008-11-26

3.  An investigation of bone resorption and Dictyostelium discoideum growth inhibition by bisphosphonate drugs.

Authors:  Christina M Szabo; Michael B Martin; Eric Oldfield
Journal:  J Med Chem       Date:  2002-07-04       Impact factor: 7.446

  3 in total
  1 in total

1.  Ammonium hydrogen (RS)-[(5-methyl-2-oxo-1,3-oxazolidin-3-yl)meth-yl]phospho-nate.

Authors:  Petar Todorov; Emilia Naydenova; Rositsa P Nikolova; Boris L Shivachev
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2009-12-04
  1 in total

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