Literature DB >> 22589873

cis-(Acetato-κ(2)O,O')(5,5,7,12,12,14-hexa-methyl-1,4,8,11-tetra-aza-cyclo-tetra-decane-κ(4)N,N',N'',N''')nickel(II) perchlorate monohydrate.

Tapashi G Roy, Debashis Palit, Babul Chandra Nath, Seik Weng Ng, Edward R T Tiekink.   

Abstract

The complete cation in the title hydrated mol-ecular salt, [Ni(CH(3)CO(2))(C(16)H(36)N(4))]ClO(4)·H(2)O, is generated by the application of crystallographic twofold symmetry; the perchlorate anion and water mol-ecule are each disordered around a twofold axis. The Ni(II) atom exists within a cis-N(4)O(2) donor set based on a strongly distorted octa-hedron and defined by the four N atoms of the macrocyclic ligand and two O atoms of a symmetrically coordinating acetate ligand. In the crystal, hydrogen bonding (water-acetate/perchlorate O-H⋯O and amine-perchlorate N-H⋯O) leads to layers in the ab plane. The layers stack along the c axis, being connected by C-H⋯O(water) inter-actions. The crystal studied was found to be a non-merohedral twin; the minor component refined to 15.9 (6)%.

Entities:  

Year:  2012        PMID: 22589873      PMCID: PMC3343905          DOI: 10.1107/S1600536812013232

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


Related literature

For background to macrocyclic complexes, see: Hazari et al. (2010 ▶). For a related structure, see: Roy et al. (2012 ▶). For the treatment of data from twinned crystals, see: Spek (2009 ▶).

Experimental

Crystal data

[Ni(C2H3O2)(n class="CellLine">C16H36N4)]ClO4·H2O M = 519.71 Monoclinic, a = 9.4041 (2) Å b = 15.9593 (4) Å c = 16.0721 (6) Å β = 96.534 (3)° V = 2396.48 (12) Å3 Z = 4 Cu Kα radiation μ = 2.58 mm−1 T = 100 K 0.25 × 0.20 × 0.15 mm

Data collection

Agilent SuperNova Dual diffractometer with an Atlas detector Absorption correction: multi-scan (CrysAlis PRO; Agilent, 2011 ▶) T min = 0.850, T max = 1.000 5502 measured reflections 2480 independent reflections 2286 reflections with I > 2σ(I) R int = 0.024

Refinement

R[F 2 > 2σ(F 2)] = 0.067 wR(F 2) = 0.162 S = 1.09 2480 reflections 171 parameters 45 restraints H-atom parameters constrained Δρmax = 0.60 e Å−3 Δρmin = −0.62 e Å−3 Data collection: CrysAlis PRO (Agilent, 2011 ▶); cell refinement: CrysAlis PRO; data reduction: CrysAlis PRO; program(s) used to solve structure: SHELXS97 (Sheldrick, 2008 ▶); program(s) used to refine structure: SHELXL97 (Sheldrick, 2008 ▶); molecular graphics: ORTEP-3 (Farrugia, 1997 ▶) and DIAMOND (Brandenburg, 2006 ▶); software used to prepare material for publication: publCIF (Westrip, 2010 ▶). Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536812013232/hb6703sup1.cif Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536812013232/hb6703Isup2.hkl Additional supplementary materials: crystallographic information; 3D view; checkCIF report
[Ni(C2H3O2)(C16H36N4]ClO4·H2OF(000) = 1112
Mr = 519.71Dx = 1.440 Mg m3
Monoclinic, C2/cCu Kα radiation, λ = 1.54184 Å
Hall symbol: -C 2ycCell parameters from 3218 reflections
a = 9.4041 (2) Åθ = 5.5–76.4°
b = 15.9593 (4) ŵ = 2.58 mm1
c = 16.0721 (6) ÅT = 100 K
β = 96.534 (3)°Prism, light-purple
V = 2396.48 (12) Å30.25 × 0.20 × 0.15 mm
Z = 4
Agilent SuperNova Dual diffractometer with an Atlas detector2480 independent reflections
Radiation source: SuperNova (Cu) X-ray Source2286 reflections with I > 2σ(I)
Mirror monochromatorRint = 0.024
Detector resolution: 10.4041 pixels mm-1θmax = 76.6°, θmin = 5.5°
ω scanh = −11→11
Absorption correction: multi-scan (CrysAlis PRO; Agilent, 2011)k = −18→19
Tmin = 0.850, Tmax = 1.000l = −3→20
5502 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)] = 0.067Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.162H-atom parameters constrained
S = 1.09w = 1/[σ2(Fo2) + (0.0529P)2 + 9.9029P] where P = (Fo2 + 2Fc2)/3
2480 reflections(Δ/σ)max < 0.001
171 parametersΔρmax = 0.60 e Å3
45 restraintsΔρmin = −0.62 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*/UeqOcc. (<1)
Ni0.50000.56446 (4)0.75000.0300 (3)
Cl10.4637 (3)0.86782 (11)0.71627 (15)0.0559 (6)0.50
O20.6083 (10)0.8409 (9)0.7174 (9)0.197 (12)0.50
O30.4105 (13)0.8372 (5)0.7910 (6)0.111 (5)0.50
O40.4585 (9)0.9554 (3)0.7181 (5)0.085 (3)0.50
O50.3800 (9)0.8336 (6)0.6466 (5)0.111 (3)0.50
O1W0.7196 (13)0.8995 (10)0.8864 (7)0.147 (6)0.50
H1W10.79670.91870.87260.220*0.50
H1W20.67290.87940.84330.220*0.50
O10.4508 (2)0.45087 (14)0.80858 (16)0.0318 (5)
N10.5584 (4)0.64503 (18)0.6573 (2)0.0459 (9)
H10.54060.69670.67210.069*
N20.2798 (3)0.5692 (2)0.6999 (2)0.0412 (8)
H20.24130.52270.71640.062*
C10.5402 (7)0.6902 (4)0.5067 (4)0.085 (2)
H1A0.64390.68330.50750.128*
H1B0.51880.74830.52060.128*
H1C0.49300.67660.45080.128*
C20.4854 (5)0.6312 (3)0.5713 (3)0.0546 (12)
H2A0.50420.57220.55460.066*
C30.3231 (5)0.6426 (3)0.5688 (4)0.0681 (16)
H3A0.28320.64890.50950.082*
H3B0.30590.69610.59730.082*
C40.2374 (5)0.5741 (3)0.6076 (3)0.0535 (12)
C50.2620 (5)0.4882 (3)0.5708 (3)0.0554 (11)
H5A0.36340.47330.58230.083*
H5B0.23450.48950.51020.083*
H5C0.20390.44650.59630.083*
C60.0754 (5)0.5945 (4)0.5877 (4)0.0749 (17)
H6A0.05580.64990.61020.112*
H6B0.01900.55210.61340.112*
H6C0.04930.59440.52690.112*
C70.2205 (4)0.6372 (3)0.7477 (3)0.0534 (12)
H7A0.11530.63100.74460.064*
H7B0.24150.69200.72290.064*
C80.2843 (4)0.6345 (3)0.8372 (3)0.0514 (11)
H8A0.24280.67990.86890.062*
H8B0.26140.58030.86240.062*
C90.50000.4119 (3)0.75000.0312 (10)
C100.50000.3177 (3)0.75000.0555 (16)
H10A0.46290.29730.80080.083*0.50
H10B0.59790.29730.74860.083*0.50
H10C0.43920.29730.70060.083*0.50
U11U22U33U12U13U23
Ni0.0253 (4)0.0131 (4)0.0551 (6)0.0000.0195 (4)0.000
Cl10.0651 (14)0.0221 (8)0.0840 (16)0.0086 (8)0.0232 (11)−0.0024 (8)
O20.201 (15)0.173 (14)0.218 (15)0.025 (9)0.034 (10)−0.029 (9)
O30.150 (9)0.049 (5)0.131 (8)−0.031 (5)0.013 (6)0.048 (5)
O40.104 (7)0.022 (3)0.141 (8)0.003 (3)0.063 (5)−0.004 (3)
O50.117 (7)0.117 (7)0.093 (6)0.022 (6)−0.005 (5)−0.035 (5)
O1W0.122 (9)0.232 (15)0.087 (7)−0.090 (10)0.017 (6)−0.022 (8)
O10.0294 (12)0.0186 (11)0.0479 (14)−0.0039 (9)0.0068 (10)0.0020 (9)
N10.0461 (19)0.0204 (14)0.079 (2)0.0067 (13)0.0404 (18)0.0113 (14)
N20.0320 (15)0.0318 (16)0.063 (2)0.0107 (13)0.0194 (14)0.0140 (14)
C10.090 (4)0.070 (4)0.106 (5)0.023 (3)0.058 (4)0.052 (3)
C20.059 (3)0.044 (2)0.067 (3)0.018 (2)0.034 (2)0.026 (2)
C30.061 (3)0.065 (3)0.083 (3)0.034 (2)0.029 (3)0.044 (3)
C40.038 (2)0.058 (3)0.066 (3)0.0198 (19)0.0136 (19)0.024 (2)
C50.041 (2)0.070 (3)0.054 (2)0.014 (2)0.0018 (19)0.010 (2)
C60.044 (3)0.094 (4)0.087 (4)0.032 (3)0.010 (3)0.031 (3)
C70.038 (2)0.038 (2)0.090 (3)0.0211 (17)0.033 (2)0.014 (2)
C80.042 (2)0.034 (2)0.086 (3)0.0081 (17)0.042 (2)0.002 (2)
C90.024 (2)0.019 (2)0.050 (3)0.000−0.001 (2)0.000
C100.074 (4)0.017 (2)0.076 (4)0.0000.010 (3)0.000
Ni—O12.118 (2)C2—H2A1.0000
Ni—N1i2.089 (3)C3—C41.532 (7)
Ni—N12.089 (3)C3—H3A0.9900
Ni—O1i2.118 (2)C3—H3B0.9900
Ni—N22.136 (3)C4—C51.521 (7)
Ni—N2i2.136 (3)C4—C61.556 (6)
Cl1—O41.400 (5)C5—H5A0.9800
Cl1—O51.404 (6)C5—H5B0.9800
Cl1—O21.424 (8)C5—H5C0.9800
Cl1—O31.439 (7)C6—H6A0.9800
O1W—H1W10.8400C6—H6B0.9800
O1W—H1W20.8399C6—H6C0.9800
O1—C91.259 (3)C7—C81.495 (7)
N1—C8i1.481 (5)C7—H7A0.9900
N1—C21.488 (6)C7—H7B0.9900
N1—H10.8800C8—N1i1.481 (5)
N2—C71.475 (5)C8—H8A0.9900
N2—C41.493 (6)C8—H8B0.9900
N2—H20.8800C9—O1i1.259 (3)
C1—C21.534 (6)C9—C101.503 (7)
C1—H1A0.9800C10—H10A0.9800
C1—H1B0.9800C10—H10B0.9800
C1—H1C0.9800C10—H10C0.9800
C2—C31.532 (6)
N1i—Ni—N1104.01 (18)C3—C2—H2A108.2
N1i—Ni—O1i158.84 (12)C1—C2—H2A108.2
N1—Ni—O1i96.96 (11)C2—C3—C4118.2 (3)
N1i—Ni—O196.96 (11)C2—C3—H3A107.8
N1—Ni—O1158.84 (12)C4—C3—H3A107.8
O1i—Ni—O162.28 (13)C2—C3—H3B107.8
N1i—Ni—N285.68 (14)C4—C3—H3B107.8
N1—Ni—N291.80 (13)H3A—C3—H3B107.1
O1i—Ni—N296.56 (11)N2—C4—C5107.7 (3)
O1—Ni—N286.94 (11)N2—C4—C3110.4 (4)
N1i—Ni—N2i91.80 (13)C5—C4—C3112.0 (4)
N1—Ni—N2i85.68 (14)N2—C4—C6111.1 (4)
O1i—Ni—N2i86.94 (11)C5—C4—C6107.3 (5)
O1—Ni—N2i96.56 (11)C3—C4—C6108.4 (4)
N2—Ni—N2i175.92 (17)C4—C5—H5A109.5
O4—Cl1—O5112.8 (5)C4—C5—H5B109.5
O4—Cl1—O2109.7 (5)H5A—C5—H5B109.5
O5—Cl1—O2109.9 (5)C4—C5—H5C109.5
O4—Cl1—O3107.8 (4)H5A—C5—H5C109.5
O5—Cl1—O3108.5 (5)H5B—C5—H5C109.5
O2—Cl1—O3108.0 (5)C4—C6—H6A109.5
H1W1—O1W—H1W2107.9C4—C6—H6B109.5
C9—O1—Ni88.4 (2)H6A—C6—H6B109.5
C8i—N1—C2113.0 (3)C4—C6—H6C109.5
C8i—N1—Ni103.3 (3)H6A—C6—H6C109.5
C2—N1—Ni116.1 (2)H6B—C6—H6C109.5
C8i—N1—H1108.0N2—C7—C8110.3 (3)
C2—N1—H1108.0N2—C7—H7A109.6
Ni—N1—H1108.0C8—C7—H7A109.6
C7—N2—C4113.9 (3)N2—C7—H7B109.6
C7—N2—Ni103.7 (3)C8—C7—H7B109.6
C4—N2—Ni120.9 (2)H7A—C7—H7B108.1
C7—N2—H2105.7N1i—C8—C7110.0 (3)
C4—N2—H2105.7N1i—C8—H8A109.7
Ni—N2—H2105.7C7—C8—H8A109.7
C2—C1—H1A109.5N1i—C8—H8B109.7
C2—C1—H1B109.5C7—C8—H8B109.7
H1A—C1—H1B109.5H8A—C8—H8B108.2
C2—C1—H1C109.5O1i—C9—O1120.9 (4)
H1A—C1—H1C109.5O1i—C9—C10119.6 (2)
H1B—C1—H1C109.5O1—C9—C10119.6 (2)
N1—C2—C3111.1 (4)C9—C10—H10A109.5
N1—C2—C1112.4 (5)C9—C10—H10B109.5
C3—C2—C1108.6 (4)C9—C10—H10C109.5
N1—C2—H2A108.2
N1i—Ni—O1—C9−175.68 (14)O1—Ni—N2—C4−123.0 (3)
N1—Ni—O1—C911.9 (4)C8i—N1—C2—C3180.0 (3)
O1i—Ni—O1—C90.0Ni—N1—C2—C360.9 (4)
N2—Ni—O1—C999.05 (14)C8i—N1—C2—C1−58.0 (4)
N2i—Ni—O1—C9−83.05 (14)Ni—N1—C2—C1−177.1 (3)
N1i—Ni—N1—C8i109.4 (3)N1—C2—C3—C4−73.5 (6)
O1i—Ni—N1—C8i−67.8 (3)C1—C2—C3—C4162.3 (5)
O1—Ni—N1—C8i−78.4 (5)C7—N2—C4—C5−161.4 (3)
N2—Ni—N1—C8i−164.6 (3)Ni—N2—C4—C574.0 (4)
N2i—Ni—N1—C8i18.6 (3)C7—N2—C4—C376.1 (4)
N1i—Ni—N1—C2−126.3 (3)Ni—N2—C4—C3−48.5 (4)
O1i—Ni—N1—C256.5 (3)C7—N2—C4—C6−44.2 (5)
O1—Ni—N1—C245.9 (5)Ni—N2—C4—C6−168.8 (3)
N2—Ni—N1—C2−40.3 (3)C2—C3—C4—N265.0 (6)
N2i—Ni—N1—C2142.9 (3)C2—C3—C4—C5−55.0 (7)
N1i—Ni—N2—C710.5 (2)C2—C3—C4—C6−173.1 (5)
N1—Ni—N2—C7−93.4 (2)C4—N2—C7—C8−172.0 (3)
O1i—Ni—N2—C7169.4 (2)Ni—N2—C7—C8−38.6 (4)
O1—Ni—N2—C7107.7 (2)N2—C7—C8—N1i60.1 (4)
N1i—Ni—N2—C4139.7 (3)Ni—O1—C9—O1i0.0
N1—Ni—N2—C435.8 (3)Ni—O1—C9—C10180.000 (1)
O1i—Ni—N2—C4−61.4 (3)
D—H···AD—HH···AD···AD—H···A
N1—H1···O20.882.473.289 (14)154
N1—H1···O3i0.882.353.181 (9)158
N2—H2···O4ii0.882.503.276 (8)148
O1w—H1w1···O1iii0.841.942.754 (11)163
O1w—H1w2···O20.842.142.950 (18)163
C3—H3A···O1Wiv0.992.143.057 (13)153
Ni—O12.118 (2)
Ni—N12.089 (3)
Ni—N22.136 (3)
O1i—Ni—O162.28 (13)

Symmetry code: (i) .

Table 2

Hydrogen-bond geometry (Å, °)

D—H⋯AD—HH⋯ADAD—H⋯A
N1—H1⋯O20.882.473.289 (14)154
N1—H1⋯O3i0.882.353.181 (9)158
N2—H2⋯O4ii0.882.503.276 (8)148
O1w—H1w1⋯O1iii0.841.942.754 (11)163
O1w—H1w2⋯O20.842.142.950 (18)163
C3—H3A⋯O1Wiv0.992.143.057 (13)153

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

  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.  cis-(Nitrato-κ(2)O,O')(2,5,5,7,9,12,12,14-octa-methyl-1,4,8,11-tetra-aza-cyclo-tetra-decane-κ(4)N,N',N'',N''')cadmium nitrate hemihydrate.

Authors:  Tapashi G Roy; Saroj K S Hazari; Babul Chandra Nath; Seik Weng Ng; Edward R T Tiekink
Journal:  Acta Crystallogr Sect E Struct Rep Online       Date:  2012-03-28

3.  Structure validation in chemical crystallography.

Authors:  Anthony L Spek
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-01-20
  3 in total

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