Home Crystal structure of catena-poly[(μ2-pyrazine-N,N′)-bis(O,O′-di-isopropyldithiophosphato-S,S′)cadmium(II) acetonitrile di-solvate], [C16H32CdN2O4P2S4⋅2(C2H3N)]n
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Crystal structure of catena-poly[(μ2-pyrazine-N,N′)-bis(O,O′-di-isopropyldithiophosphato-S,S′)cadmium(II) acetonitrile di-solvate], [C16H32CdN2O4P2S4⋅2(C2H3N)]n

  • Yee Seng Tan and Edward R.T. Tiekink ORCID logo EMAIL logo
Published/Copyright: October 31, 2019

Abstract

C20H38CdN4O4P2S4, triclinic, P1̄ (no. 2), a = 9.6352(2) Å, b = 11.3986(2) Å, c = 14.8017(3) Å, α = 85.713(2)°, β = 89.877(2)°, γ = 86.048(2)°, V = 1617.23(6) Å3, Z = 2, Rgt(F) = 0.0285, wRref(F2) = 0.0829, T = 100 K.

CCDC no.: 1960108

A part of the coordination polymer is shown in the figure. Table 1 contains crystallographic data and Table 2 contains the list of the atoms including atomic coordinates and displacement parameters.

Table 1:

Data collection and handling.

Crystal:Yellow prism
Size:0.20 × 0.16 × 0.11 mm
Wavelength:Cu Kα radiation (1.54184 Å)
μ:9.01 mm−1
Diffractometer, scan mode:XtaLAB Synergy, ω
θmax, completeness:67.1°, >99%
N(hkl)measured, N(hkl)unique, Rint:35021, 5774, 0.026
Criterion for Iobs, N(hkl)gt:Iobs > 2 σ(Iobs), 5699
N(param)refined:326
Programs:CrysAlisPRO [1], SHELX [2], [3], WinGX/ORTEP [4]
Table 2:

Fractional atomic coordinates and isotropic or equivalent isotropic displacement parameters (Å2).

AtomxyzUiso*/Ueq
Cd0.24881(2)0.01263(2)0.30020(2)0.01594(8)
S10.20107(8)0.24528(7)0.28202(6)0.02164(18)
S20.44987(8)0.08041(7)0.18577(5)0.02047(17)
S30.30923(8)−0.21808(7)0.29062(6)0.02071(17)
S40.04659(8)−0.04897(7)0.19308(6)0.02090(17)
P10.13777(8)−0.21045(7)0.21454(5)0.01741(17)
P20.36493(8)0.24181(7)0.19914(6)0.01782(17)
O10.4831(2)0.3179(2)0.23202(17)0.0221(5)
O20.3252(2)0.3087(2)0.10350(16)0.0237(5)
O30.0227(2)−0.2885(2)0.25895(16)0.0209(5)
O40.1688(2)−0.2733(2)0.12354(16)0.0232(5)
N10.0902(3)0.0030(2)0.42669(18)0.0184(6)
N20.4108(3)0.0061(2)0.42553(18)0.0180(6)
N30.6923(5)0.7159(4)0.4335(3)0.0584(11)
N40.8120(5)0.2285(5)0.3963(3)0.0743(17)
C10.4530(4)0.4409(3)0.2569(3)0.0233(7)
H10.35470.46740.24020.028*
C20.5500(4)0.5153(3)0.2020(3)0.0322(9)
H2A0.64640.48650.21550.048*
H2B0.53540.59740.21720.048*
H2C0.53130.51050.13730.048*
C30.4715(5)0.4427(4)0.3571(3)0.0420(10)
H3A0.40360.39400.38840.063*
H3B0.45710.52390.37440.063*
H3C0.56580.41130.37410.063*
C40.2183(4)0.2609(3)0.0481(2)0.0277(8)
H40.18000.19160.08250.033*
C50.2872(5)0.2217(4)−0.0371(3)0.0447(11)
H5A0.32200.2900−0.07190.067*
H5B0.21940.1856−0.07370.067*
H5C0.36490.1639−0.02110.067*
C60.1039(5)0.3572(4)0.0312(3)0.0450(11)
H6A0.06470.37910.08920.068*
H6B0.03070.3289−0.00580.068*
H6C0.14190.4262−0.00080.068*
C70.0543(4)−0.4154(3)0.2875(3)0.0272(8)
H70.1431−0.44430.25900.033*
C8−0.0643(5)−0.4782(4)0.2530(3)0.0418(11)
H8A−0.1504−0.45230.28320.063*
H8B−0.0458−0.56340.26570.063*
H8C−0.0741−0.45980.18750.063*
C90.0687(5)−0.4289(4)0.3893(3)0.0451(11)
H9A0.1419−0.38020.40810.068*
H9B0.0934−0.51170.40880.068*
H9C−0.0197−0.40340.41700.068*
C100.2906(4)−0.2496(4)0.0664(3)0.0353(10)
H100.3737−0.24500.10600.042*
C110.2644(6)−0.1347(4)0.0106(3)0.0527(13)
H11A0.1777−0.1359−0.02370.079*
H11B0.3418−0.1234−0.03150.079*
H11C0.2567−0.06990.05060.079*
C120.3134(4)−0.3540(4)0.0101(3)0.0359(9)
H12A0.3236−0.42660.05010.054*
H12B0.3979−0.3461−0.02610.054*
H12C0.2335−0.3574−0.03020.054*
C130.0030(3)−0.0832(3)0.4409(2)0.0204(7)
H130.0028−0.14370.40010.025*
C140.0868(3)0.0856(3)0.4857(2)0.0208(7)
H140.14750.14780.47740.025*
C150.4142(3)−0.0842(3)0.4887(2)0.0205(7)
H150.3540−0.14580.48260.025*
C160.4973(3)0.0906(3)0.4372(2)0.0207(7)
H160.49810.15630.39390.025*
C170.6917(4)0.7703(4)0.3664(3)0.0351(9)
C180.6907(4)0.8379(4)0.2804(3)0.0455(11)
H18A0.77920.82180.24940.068*
H18B0.67820.92210.29000.068*
H18C0.61400.81580.24320.068*
C190.8125(4)0.2179(4)0.3205(4)0.0476(13)
C200.8130(4)0.2061(4)0.2239(3)0.0412(10)
H20A0.74630.26560.19430.062*
H20B0.78670.12720.21200.062*
H20C0.90640.21770.20000.062*

Source of material

The Cd[S2P(OiPr)2]2 precursor was prepared in high yield from the in situ reaction of Cd(NO3)2⋅4 H2O (Acros Organic; 15.42 g, 0.05 mol), iPrOH (Merck; 16.05 mL, 0.21 mol), P2S5 (Sigma-Aldrich; 11.11 g, 0.05 mol) and 50% w/w NaOH solution (Merck; 8.80 mL, 0.11 mol). The anticipated title compound was obtained by mixing a suspension of Cd[S2P(OiPr)2]2 (0.50 g, 0.93 mmol) and pyrazine (Merck, 0.08 g, 1.00 mmol) in dimethylformamide (Merck; 5 mL), followed by stirring for 30 min. at 373 K. The solution was filtered and the filtrate collected in a sample vial containing acetonitrile (Merck; 1 mL). Yellow crystals formed after three days. An isolated crystal was harvested and examined directly by X-ray crystallography without further characterization.

Experimental details

The C-bound H atoms were geometrically placed (C—H = 0.95–0.99 Å) and refined as riding with Uiso(H) = 1.2–1.5Ueq(C). Owing to poor agreement, three reflections, i.e. (1 −5 2), (0 5 4) and (3 −5 5), were omitted from the final cycles of refinement. The maximum and minimum residual electron density peaks of 1.27 and 0.55 eÅ−3, respectively, were located 0.91 and 0.83 Å from the S3 and Cd atoms, respectively.

Comment

In a recent report, the first example of a cadmium(II) 1,1-dithiolate compound complexed with pyrazine (pyr) was described, namely, {Cd[S2P(OEt)2]2(pyr)}n, (I) [5]. In its crystal, this is a one-dimensional coordination polymer with a linear topology, analogous to that found in the zinc xanthate analogue [Zn(S2COEt)2(pyr)]n [6]. The only other related examples were found to be binuclear, i.e. {Zn[S2CN(CH2CH2OH)2]2}2(pyr), isolated in solvent-free form and as a dioxane solvate [7], and {Zn[S2P(O-iPr)2]2}2(pyr) [8]. In continuation of systematic studies in this area [7], [8], [9], [10], herein, the crystal and molecular structures of {Cd[S2P(O-iPr)2]2(pyr)}n, (II), i.e. the isopropyl analogue of (I), isolated as a di-acetonitrile solvate, are described.

The immediate coordination environment for the cadmium atom in (II) is shown in the figure (70% probablility displacement ellipsoids; solvent molecules are omitted). The cadmium atom and dithiophosphate ligands lie in general positions whereas each of the independent pyr molecules is disposed about a centre of inversion (referring to the figure, the complete N1-pyr molecule is completed by the application of symmetry operation (i) − x, −y, 1 − z while (ii) 1 − x, −y, 1 − z is required to generate the full N2-pyr molecule). The cadmium atom is octahedrally coordinated within a cis-N2S4 donor set defined by two chelating dithiophosphate ligands and two pyr-nitrogen atoms. The dithiophosphate ligands are chelating in a symmetric mode [Cd—S1, S2 = 2.6537(8) and 2.6861(8) Å; Cd—S3, S4 = 2.6681(8) and 2.6780(8) Å]. The differences between Cd—S(long) and Cd—S(short) = Δ(Cd—S) are quite small, i.e. values of 0.03 and 0.01 Å are noted for the S1- and S3-dithiophosphate ligands, respectively. The difference in Δ(Cd—S) is also reflected in the P—S bond lengths. Thus, Δ(P—S) is greater, i.e. 0.013 Å for the S1-dithiophosphate (P1—S1, S2 = 1.9974(12) and 1.9849(12) Å] than 0.007 for the S3-dithiophosphate ligand [P2—S3, S4 = 1.9946(11) and 1.9879(12) Å]. The Cd—N bond lengths are experimentally equivalent [Cd—N1, N2 = 2.416(3) and 2.420(3) Å]. In the N2S4 octahedron, the more tightly bound S1 and S3 atoms occupy mutually trans-positions [170.78(3)°] and the pyrazine-nitrogen atoms are each trans to a less-tightly bound S2 or S4 atom [N1—Cd—S2 = 162.22(7)° and N2—Cd—S4 = 160.15(7)°]. The maximum distortion in terms of cis-angles is seen in S2—Cd—S4 angle of 104.75(3)°.

As shown in the lower view of the figure, the resultant one-dimensional coordination polymer in the crystal of (II) is a zigzag chain. This contrasts the linear chain noted in the crystal of (I) [5]. An obvious difference between the molecular structures of (II) and (I) relates to the relative positions of the nitrogen atoms within the N2S4 donor set, i.e. cis- and trans-, respectively. As to why one disposition occurs preferentially in (I) and (II) is not yet clear.

In the packing, each of the acetonitrile molecules is loosely associated with the one-dimensional chain, i.e. via pyrazinyl-C—H⋯N(acetonitrile) [C15—H15⋯N4ii: H15⋯N4ii = 2.57 Å, C15⋯N4ii = 3.227(6) Å with angle at H15 = 127°] and methyl-C—H⋯O(alkoxy) interactions [C18—H18a⋯O3iii: H18a⋯O3iii = 2.58 Å, C18⋯O3iii = 3.441(4) Å with angle at H18a = 146° for (iii) 1 + x, 1 + y, z]. The resultant aggregates pack without directional interactions between them.

Acknowledgements

Sunway University Sdn Bhd is thanked for financial support of this work through Grant no. STR-RCTR-RCCM-001-2019.

References

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Received: 2019-09-03
Accepted: 2019-10-18
Published Online: 2019-10-31
Published in Print: 2020-02-25

©2019 Yee Seng Tan et al., published by De Gruyter, Berlin/Boston

This work is licensed under the Creative Commons Attribution 4.0 Public License.

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  54. The crystal structure of 3-carboxy-5-methylpyridin-1-ium-2-carboxylate, C8H7NO4
  55. Crystal structure of bis(3-methoxy-N-(1-(pyridin-2-yl)ethylidene)benzohydrazonato κ3O,N,N′)zinc(II), C30H28N6O4Zn
  56. Crystal structure of dichlorido-(4,4′-dichloro-2,2′-bipyridine-κ2N,N′)platinum(II) — acetone (1/1), C13H12Cl4N2PtO
  57. Crystal structure of diethyl 6,12-bis(4-fluorophenyl)-2,10-dimethoxy-3,9-diphenyl-3,9-diazatetracyclo[6.4.0.02,7.04,11]dodecane-1,5-dicarboxylate, C42H42F2N2O6
  58. Synthesis and crystal structure of (1E,3E)-2-hydroxy-5-methylisophthalaldehyde O,O-di(2-((((E)-(2-hydroxynaphthalen-1-yl)methylene)amino)oxy)ethyl) dioxime, C35H32N4O7
  59. The crystal structure of 2-phenyl-4,6-bis(prop-2-yn-1-yloxy)-1,3,5-triazine, C15H11N3O2
  60. Crystal structure of 7-(2-{4-[(4-bromophenyl)methyl]piperazin-1-yl}ethoxy)-2H-chromen-2-one, C22H23BrN2O3
  61. Crystal structure of bis-[N-(3-ethyl-1-pyrazin-2-yl-ethylidene)-3-bromo-benzoic acid-hydrazonato-κ3O,N,N′)]-cadmium(II), C30H28N8O2Br2Cd
  62. Crystal structure of 6-(4-fluorophenyl)-4-methoxy-2H-pyran-2-one, C12H9FO3
  63. Crystal structure of 3-methyl-3-(2,4,5-trimethyl-3,6-dioxocyclohexa-1,4-dien-1-yl)butanoic acid, C14H18O4
  64. The crystal structure of 3-bromo-6-methoxy-2-methyl-5-(4,4,5,5-tetramethyl-1,3,2-dioxaborolan-2-yl)pyridine, C13H19BBrNO3
  65. The crystal structure of 6-methyl-3,20-dioxo-19-norpregna-4,6-dien-17-yl acetate–2,4-dihydroxybenzoic acid (1/1), C30H36O8
  66. The crystal structure of (5-chloro-2-hydroxy-N-(4-methoxy-2-oxidobenzylidene)benzohydrazonato-κ3N,O,O′)-(pyridine-κ1N)copper(II), C20H16ClCuN3O4
  67. Crystal structure of (E)-2-cyano-N′-(1-(3-ethylpyrazin-2-yl)ethylidene)acetohydrazide, C11H3N5O
  68. Crystal structure of (2,7-dihexyl-9,9-dimethyl-9H-xanthene-4,5-diyl)bis(diphenylphosphane), C51H56OP2
  69. Crystal structure of 5-((bis(pyridin-2-ylmethyl)amino)methyl)quinolin-8-ol, C22H20N4O
  70. Crystal structure of 3-(2-(5-(4-fluorophenyl)-3-(4-methylphenyl)-4,5-dihydro-1H-pyrazol-1-yl)thiazol-4-yl)-2H-chromen-2-one, C28H20FN3O2S
  71. The crystal structure of [(tetra-μ2-2,6-difluorobenzoato-κ2O:O′)-bis-(2,6-difluorobenzoato-κ2O:O′)-bis-(1,10-phenanthroline-κ2N:N′)]dierbium(III) C66H34N4O12F12Er2
  72. Crystal structure of bis(3-chloro-N-(1-(pyrazin-2-yl)ethylidene)benzohydrazonato-k3N,N′,O)nickel(II), C26H20N8O2Cl2Ni
  73. Crystal structure of (E)-3-(3-(5-methyl-1-phenyl-1H-1,2,3-triazol-4-yl)-1-phenyl-1H-pyrazol-4-yl)-1-phenylprop-2-en-1-one, C27H21N5O
  74. Crystal structure of (E)-N′-((4-aminophenyl)sulfonyl)-N,N-dimethylformimidamide, C9H13N3O2S
  75. Crystal structure of η6-p-cymene-iodido-(N-isopropyl-1-(pyridin-2-yl)methanimine-κ2N,N′)ruthenium(II) hexafluorophosphate(V), C19H26IN2F6Ru
  76. Crystal structure of 6-iodo-3-phenyl-2-propylquinazolin-4(3H)-one, C17H15IN2O
  77. Low temperature redetermination of the crystal structure of catena-poly[[tri-4-fluorobenzyltin(IV)]μ2-pyridine-4-carboxylato-κ2N:O], {C27H22F3NO2Sn}n
  78. Crystal structure of bis(2-propyl-1H-benzo[d]imidazol-3-ium) tetrachloridozincate(II), C10H13Cl4N2Zn
  79. The crystal structure of (Z)-3-hydrazono-5-nitroindolin-2-one – dimethyl sulfoxide (1/1), C8H6N4O3
  80. Crystal structure of bis-[N-(1-pyrazin-2-yl-ethylidene)-cyanoacetic acid-hydrazonato-κ3O,N,N′)]-zinc(II), C18H16N10O2Zn
  81. Crystal structure and photochromism of 1-(2,5-dimethyl-3-thienyl)-2-[2-methyl-5-(benzaldoxime)-3-thienyl] perfluorocyclopentene, C23H17F6NOS2
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