Literature DB >> 21589232

trans-Bis[(1-ammonio-pentane-1,1-di-yl)diphospho-nato-κO,O']diaqua-copper(II).

Natalia V Tsaryk1, Anatolij V Dudko, Alexandra N Kozachkova, Vladimir V Bon, Vasily I Pekhnyo.   

Abstract

In the title compound, [Cu(C(5)H(14)NO(6)P(2))(2)(H(2)O)(2)], the Cu(II) atom occupies a special position on an inversion centre. It exhibits a distorted octa-hedral coordination environment consisting of two O,O'-bidentate (1-ammonio-pentane-1,1-di-yl)diphospho-nate anions in the equatorial plane and two trans water mol-ecules located in axial positions. The ligand mol-ecules are coordinated to the Cu(II) atom in their zwitterionic form via two O atoms from different phospho-nate groups, creating two six-membered chelate rings with a screw-boat conformation. The CuO(6) coordination polyhedron is strongly elongated in the axial direction with 0.6 Å longer bonds than those in the equatorial plane. Intra-molecular N-H⋯O hydrogen bonding helps to stabilize the mol-ecular configuration. The presence of supra-molecular -PO(OH)⋯O(OH)P- units parallel to (100) and other O-H⋯O and N-H⋯O hydrogen bonds establish the three-dimensional set-up.

Entities:  

Year:  2010        PMID: 21589232      PMCID: PMC3011560          DOI: 10.1107/S1600536810045216

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


Related literature

For general background to organic diphospho­nic acids and their metal complexes, see: Eberhardt et al. (2005 ▶); Matczak-Jon & Videnova-Adrabinska (2005 ▶). For related structures, see: Sergienko et al. (1997 ▶, 1999 ▶).

Experimental

Crystal data

[Cu(C5H14NO6P2)2(H2O)2] M = 591.80 Triclinic, a = 5.5629 (1) Å b = 10.0236 (2) Å c = 10.5237 (2) Å α = 69.315 (1)° β = 86.666 (1)° γ = 88.398 (1)° V = 548.03 (2) Å3 Z = 1 Mo Kα radiation μ = 1.36 mm−1 T = 173 K 0.35 × 0.15 × 0.08 mm

Data collection

Bruker APEXII CCD diffractometer Absorption correction: multi-scan (SADABS; Bruker, 2005 ▶) T min = 0.648, T max = 0.899 5322 measured reflections 2277 independent reflections 2104 reflections with I > 2σ(I) R int = 0.019

Refinement

R[F 2 > 2σ(F 2)] = 0.023 wR(F 2) = 0.064 S = 1.07 2277 reflections 168 parameters 4 restraints H atoms treated by a mixture of independent and constrained refinement Δρmax = 0.43 e Å−3 Δρmin = −0.36 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: DIAMOND (Brandenburg & Putz, 2010 ▶); software used to prepare material for publication: publCIF (Westrip, 2010 ▶). Crystal structure: contains datablocks I, global. DOI: 10.1107/S1600536810045216/wm2420sup1.cif Structure factors: contains datablocks I. DOI: 10.1107/S1600536810045216/wm2420Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
[Cu(C5H14NO6P2)2(H2O)2]Z = 1
Mr = 591.80F(000) = 307
Triclinic, P1Dx = 1.793 Mg m3
Hall symbol: -P 1Mo Kα radiation, λ = 0.71073 Å
a = 5.5629 (1) ÅCell parameters from 3621 reflections
b = 10.0236 (2) Åθ = 2.4–26.6°
c = 10.5237 (2) ŵ = 1.36 mm1
α = 69.315 (1)°T = 173 K
β = 86.666 (1)°Rod, light blue
γ = 88.398 (1)°0.35 × 0.15 × 0.08 mm
V = 548.03 (2) Å3
Bruker APEXII CCD diffractometer2277 independent reflections
Radiation source: fine-focus sealed tube2104 reflections with I > 2σ(I)
graphiteRint = 0.019
φ and ω scansθmax = 26.7°, θmin = 2.1°
Absorption correction: multi-scan (SADABS; Bruker, 2005)h = −7→6
Tmin = 0.648, Tmax = 0.899k = −12→12
5322 measured reflectionsl = −13→13
Refinement on F2Primary atom site location: structure-invariant direct methods
Least-squares matrix: fullSecondary atom site location: difference Fourier map
R[F2 > 2σ(F2)] = 0.023Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.064H atoms treated by a mixture of independent and constrained refinement
S = 1.07w = 1/[σ2(Fo2) + (0.0298P)2 + 0.4491P] where P = (Fo2 + 2Fc2)/3
2277 reflections(Δ/σ)max < 0.001
168 parametersΔρmax = 0.43 e Å3
4 restraintsΔρmin = −0.36 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
Cu11.00000.50000.50000.01029 (10)
P10.98580 (8)0.44423 (5)0.21486 (4)0.00887 (11)
P20.90052 (8)0.20736 (5)0.48297 (5)0.00893 (11)
N10.5396 (3)0.34163 (17)0.32262 (17)0.0112 (3)
H11N0.458 (4)0.367 (2)0.245 (3)0.017*
H12N0.539 (4)0.416 (3)0.348 (2)0.017*
H13N0.444 (4)0.274 (3)0.380 (2)0.017*
O11.0859 (2)0.49686 (13)0.31854 (12)0.0116 (3)
O20.8085 (2)0.55876 (14)0.12618 (14)0.0136 (3)
H2O0.813 (5)0.573 (3)0.0476 (18)0.040 (8)*
O31.1764 (2)0.40075 (14)0.12969 (13)0.0120 (3)
O40.8517 (2)0.31422 (13)0.55360 (13)0.0114 (3)
O51.1555 (2)0.15980 (13)0.46941 (13)0.0119 (3)
O60.7259 (2)0.08082 (14)0.55649 (14)0.0131 (3)
H6O0.767 (5)0.009 (2)0.546 (3)0.033 (8)*
C10.7927 (3)0.28852 (18)0.31004 (18)0.0098 (3)
C20.7970 (3)0.17564 (19)0.24218 (19)0.0136 (4)
H2A0.96590.14420.23490.016*
H2B0.70530.09190.30290.016*
C30.6952 (4)0.2217 (2)0.10125 (19)0.0156 (4)
H3A0.51720.21650.11030.019*
H3B0.74040.32170.04880.019*
C40.7925 (4)0.1255 (2)0.0260 (2)0.0231 (4)
H4A0.75980.02500.08310.028*
H4B0.96930.13690.01130.028*
C50.6820 (5)0.1581 (3)−0.1105 (2)0.0337 (6)
H5A0.50630.1523−0.09730.050*
H5B0.74100.0886−0.15150.050*
H5C0.72750.2543−0.17090.050*
O71.3880 (3)0.39603 (15)0.61934 (15)0.0182 (3)
H71O1.511 (4)0.358 (3)0.610 (3)0.034 (8)*
H72O1.335 (5)0.342 (3)0.689 (2)0.045 (9)*
U11U22U33U12U13U23
Cu10.01286 (17)0.01044 (16)0.00899 (16)−0.00195 (11)0.00097 (12)−0.00526 (12)
P10.0090 (2)0.0103 (2)0.0078 (2)−0.00018 (16)−0.00004 (17)−0.00388 (17)
P20.0094 (2)0.0088 (2)0.0089 (2)−0.00008 (16)−0.00038 (17)−0.00345 (17)
N10.0092 (8)0.0124 (8)0.0121 (8)−0.0011 (6)−0.0007 (6)−0.0045 (7)
O10.0125 (6)0.0135 (6)0.0099 (6)−0.0031 (5)0.0013 (5)−0.0055 (5)
O20.0160 (7)0.0145 (6)0.0094 (7)0.0037 (5)−0.0007 (5)−0.0035 (5)
O30.0106 (6)0.0161 (6)0.0098 (6)0.0010 (5)0.0003 (5)−0.0057 (5)
O40.0140 (6)0.0109 (6)0.0104 (6)−0.0023 (5)0.0013 (5)−0.0050 (5)
O50.0105 (6)0.0105 (6)0.0151 (6)0.0001 (5)−0.0013 (5)−0.0050 (5)
O60.0140 (7)0.0097 (6)0.0160 (7)−0.0013 (5)0.0030 (5)−0.0053 (5)
C10.0082 (8)0.0114 (8)0.0109 (8)0.0000 (6)0.0000 (7)−0.0051 (7)
C20.0167 (9)0.0122 (9)0.0138 (9)−0.0007 (7)−0.0015 (7)−0.0069 (7)
C30.0182 (10)0.0168 (9)0.0138 (9)0.0000 (7)−0.0043 (7)−0.0075 (8)
C40.0331 (12)0.0222 (10)0.0175 (10)0.0016 (9)−0.0021 (9)−0.0117 (9)
C50.0554 (17)0.0308 (12)0.0196 (11)−0.0073 (11)−0.0052 (11)−0.0137 (10)
O70.0157 (7)0.0187 (7)0.0184 (8)0.0027 (6)0.0016 (6)−0.0050 (6)
Cu1—O41.9381 (12)O2—H2O0.787 (17)
Cu1—O4i1.9381 (12)O6—H6O0.791 (17)
Cu1—O11.9524 (12)C1—C21.536 (2)
Cu1—O1i1.9524 (12)C2—C31.527 (3)
Cu1—O72.5666 (15)C2—H2A0.9900
Cu1—O7i2.5666 (15)C2—H2B0.9900
P1—O31.5023 (13)C3—C41.520 (3)
P1—O11.5075 (13)C3—H3A0.9900
P1—O21.5649 (13)C3—H3B0.9900
P1—C11.8594 (18)C4—C51.520 (3)
P2—O51.4986 (13)C4—H4A0.9900
P2—O41.5153 (13)C4—H4B0.9900
P2—O61.5618 (14)C5—H5A0.9800
P2—C11.8404 (18)C5—H5B0.9800
N1—C11.507 (2)C5—H5C0.9800
N1—H11N0.91 (2)O7—H71O0.791 (17)
N1—H12N0.88 (2)O7—H72O0.786 (17)
N1—H13N0.89 (3)
O4—Cu1—O4i180.0N1—C1—P2107.55 (12)
O4—Cu1—O191.21 (5)C2—C1—P2109.19 (12)
O4i—Cu1—O188.79 (5)N1—C1—P1108.41 (12)
O4—Cu1—O1i88.79 (5)C2—C1—P1112.60 (12)
O4i—Cu1—O1i91.21 (5)P2—C1—P1108.34 (9)
O1—Cu1—O1i180.0C3—C2—C1116.32 (15)
O4—Cu1—O792.80 (5)C3—C2—H2A108.2
O4i—Cu1—O787.20 (5)C1—C2—H2A108.2
O1—Cu1—O799.95 (5)C3—C2—H2B108.2
O1i—Cu1—O780.05 (5)C1—C2—H2B108.2
O3—P1—O1113.56 (7)H2A—C2—H2B107.4
O3—P1—O2112.23 (7)C4—C3—C2110.18 (16)
O1—P1—O2109.39 (7)C4—C3—H3A109.6
O3—P1—C1109.48 (8)C2—C3—H3A109.6
O1—P1—C1107.00 (8)C4—C3—H3B109.6
O2—P1—C1104.67 (8)C2—C3—H3B109.6
O5—P2—O4118.15 (7)H3A—C3—H3B108.1
O5—P2—O6113.02 (7)C3—C4—C5112.75 (18)
O4—P2—O6105.54 (7)C3—C4—H4A109.0
O5—P2—C1107.25 (8)C5—C4—H4A109.0
O4—P2—C1106.99 (8)C3—C4—H4B109.0
O6—P2—C1105.01 (8)C5—C4—H4B109.0
C1—N1—H11N114.7 (14)H4A—C4—H4B107.8
C1—N1—H12N110.8 (15)C4—C5—H5A109.5
H11N—N1—H12N107 (2)C4—C5—H5B109.5
C1—N1—H13N112.7 (15)H5A—C5—H5B109.5
H11N—N1—H13N101 (2)C4—C5—H5C109.5
H12N—N1—H13N109 (2)H5A—C5—H5C109.5
P1—O1—Cu1139.17 (8)H5B—C5—H5C109.5
P1—O2—H2O118 (2)Cu1—O7—H71O142 (2)
P2—O4—Cu1124.94 (8)Cu1—O7—H72O101 (2)
P2—O6—H6O113 (2)H71O—O7—H72O101 (3)
N1—C1—C2110.60 (15)
O3—P1—O1—Cu1−148.54 (11)O5—P2—C1—P1−60.90 (10)
O2—P1—O1—Cu185.23 (13)O4—P2—C1—P166.79 (10)
C1—P1—O1—Cu1−27.63 (14)O6—P2—C1—P1178.62 (8)
O4—Cu1—O1—P135.20 (12)O3—P1—C1—N1−146.05 (11)
O4i—Cu1—O1—P1−144.80 (12)O1—P1—C1—N190.47 (12)
O7—Cu1—O1—P1128.25 (12)O2—P1—C1—N1−25.56 (13)
O5—P2—O4—Cu156.52 (11)O3—P1—C1—C2−23.36 (14)
O6—P2—O4—Cu1−175.96 (8)O1—P1—C1—C2−146.83 (12)
C1—P2—O4—Cu1−64.49 (11)O2—P1—C1—C297.14 (13)
O1—Cu1—O4—P219.60 (9)O3—P1—C1—P297.52 (9)
O1i—Cu1—O4—P2−160.40 (9)O1—P1—C1—P2−25.95 (10)
O7—Cu1—O4—P2−80.42 (9)O2—P1—C1—P2−141.98 (8)
O5—P2—C1—N1−177.89 (11)N1—C1—C2—C357.4 (2)
O4—P2—C1—N1−50.20 (13)P2—C1—C2—C3175.60 (14)
O6—P2—C1—N161.64 (13)P1—C1—C2—C3−64.01 (19)
O5—P2—C1—C262.07 (14)C1—C2—C3—C4158.78 (17)
O4—P2—C1—C2−170.25 (12)C2—C3—C4—C5175.28 (19)
O6—P2—C1—C2−58.41 (14)
D—H···AD—HH···AD···AD—H···A
N1—H11N···O3ii0.91 (2)1.98 (3)2.849 (2)158 (2)
N1—H12N···O7i0.88 (2)2.08 (3)2.945 (2)167 (2)
N1—H13N···O5ii0.89 (3)1.99 (3)2.849 (2)162 (2)
O2—H2O···O3iii0.79 (2)1.79 (2)2.5741 (18)178 (3)
O6—H6O···O5iv0.79 (2)1.80 (2)2.5848 (18)176 (3)
O7—H71O···O4v0.79 (2)2.04 (2)2.8071 (19)165 (3)
O7—H72O···O2i0.79 (2)2.56 (3)3.010 (2)118 (3)
Table 1

Selected bond lengths (Å)

Cu1—O41.9381 (12)
Cu1—O11.9524 (12)
Cu1—O72.5666 (15)
Table 2

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H11N⋯O3i0.91 (2)1.98 (3)2.849 (2)158 (2)
N1—H12N⋯O7ii0.88 (2)2.08 (3)2.945 (2)167 (2)
N1—H13N⋯O5i0.89 (3)1.99 (3)2.849 (2)162 (2)
O2—H2O⋯O3iii0.79 (2)1.79 (2)2.5741 (18)178 (3)
O6—H6O⋯O5iv0.79 (2)1.80 (2)2.5848 (18)176 (3)
O7—H71O⋯O4v0.79 (2)2.04 (2)2.8071 (19)165 (3)
O7—H72O⋯O2ii0.79 (2)2.56 (3)3.010 (2)118 (3)

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

  2 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.  High dosage treatment of nitrogen-containing bisphosphonate ibandronate is required for osseointegration of cementless metal implants.

Authors:  Christian Eberhardt; Markus Schwarz; Andreas H Kurth
Journal:  J Orthop Sci       Date:  2005-11       Impact factor: 1.601

  2 in total
  1 in total

1.  Crystal structure of bis-[(1-ammonio-1-phosphono-eth-yl)phospho-nato]tetra-aqua-cadmium dihydrate: a powder X-ray diffraction study.

Authors:  Mwaffak Rukiah; Thaer Assaad
Journal:  Acta Crystallogr E Crystallogr Commun       Date:  2015-03-07
  1 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.