metal-organic compounds
Tetraaquabis[3-(2-pyridylsulfanyl)propionato N-oxide]nickel(II)
aDepartment of Chemistry, Popes College, Sawyerpuram 628 251, Tamilnadu, India, bDepartment of Physics, Karunya University, Karunya Nagar, Coimbatore 641 114, India, cDepartment of Physics, Popes College, Sawyerpuram 628 251, Tamilnadu, India, and dInstitut für Organische Chemie, Universität Mainz, Duesbergweg 10-14, 55099 Mainz, Germany
*Correspondence e-mail: b_ravidurai@yahoo.com
In the centrosymmetric title compound, [Ni(C8H8NO3S)2(H2O)4], the NiII ion, which lies on an inversion centre, is six coordinated by four water molecules and two propionate O atoms from two 2-pyridylsulfanylpropionate N-oxide ligands, forming a slightly distorted octahedral geometry. An intramolecular O—H⋯O hydrogen bond stabilizes the molecular conformation. The crystal packing is consolidated by intermolecular O—H⋯O and C—H⋯O hydrogen bonding.
Related literature
For the biological activities of N-oxide derivatives, see: Bovin et al. (1992); Katsuyuki et al. (1991). Leonard et al. (1955); Lobana & Bhatia (1989); Symons & West (1985). For related literature, see: Jebas et al. (2005); Ravindran et al. (2008).
Experimental
Crystal data
|
Refinement
|
|
Data collection: APEX2 (Bruker, 2008); cell APEX2; data reduction: APEX2; 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: SHELXTL and PLATON (Spek, 2009).
Supporting information
10.1107/S1600536809011283/bt2915sup1.cif
contains datablocks global, I. DOI:Structure factors: contains datablock I. DOI: 10.1107/S1600536809011283/bt2915Isup2.hkl
A mixture of the potassium salt of 3(1-oxo-pyridinine- 2-sulfanyl)propionic acid (0.237 g,1 mmol) and Nickel (II) chloride (0.13 g, 0.5 mmol), in water (20 ml) was heated at 333k with continous stirring for one hour. The solution was kept aside for slow evaporation. After two weeks, green colored crystals were obtained.
After checking their presence in the Fourier map, all the hydrogen atoms were fixed on the calculated positions and allowed to ride on their parent atoms with the C—H = 0.95 Å (aromatic), C—H = 0.99 Å (methylene) and O—H = 0.81–0.82 Å (water) with Uiso(C) in the range of 1.2Ueq(C) and 1.5Ueq(O).
Data collection: APEX2 (Bruker, 2008); cell
APEX2 (Bruker, 2008); data reduction: APEX2 (Bruker, 2008); 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: SHELXTL (Sheldrick, 2008) and PLATON (Spek, 2009).Fig. 1. The molecular structure of the title compound, showing 50% probability displacement ellipsoids and the atom numbering scheme. Symmetry code: -x + 1,-y + 1,-z + 1. | |
Fig. 2. The crystal packing of the title compound, viewed down the a axis. Molecules are stacked along the a axis. |
[Ni(C8H8NO3S)2(H2O)4] | Z = 1 |
Mr = 527.20 | F(000) = 274 |
Triclinic, P1 | Dx = 1.636 Mg m−3 |
Hall symbol: -P 1 | Mo Kα radiation, λ = 0.71069 Å |
a = 4.8155 (5) Å | Cell parameters from 6946 reflections |
b = 8.765 (1) Å | θ = 2.3–28.2° |
c = 12.9560 (15) Å | µ = 1.16 mm−1 |
α = 86.400 (2)° | T = 173 K |
β = 79.501 (2)° | Plate, green |
γ = 84.929 (2)° | 0.35 × 0.28 × 0.07 mm |
V = 534.98 (10) Å3 |
Bruker SMART APEXII CCD diffractometer | 2615 independent reflections |
Radiation source: sealed Tube | 2501 reflections with I > 2σ(I) |
Graphite monochromator | Rint = 0.017 |
CCD scan | θmax = 28.2°, θmin = 1.6° |
Absorption correction: multi-scan (SADABS; Sheldrick, 2008) | h = −6→6 |
Tmin = 0.405, Tmax = 0.492 | k = −11→11 |
9627 measured reflections | l = −17→17 |
Refinement on F2 | Primary atom site location: structure-invariant direct methods |
Least-squares matrix: full | Secondary atom site location: difference Fourier map |
R[F2 > 2σ(F2)] = 0.020 | Hydrogen site location: inferred from neighbouring sites |
wR(F2) = 0.055 | H-atom parameters constrained |
S = 1.05 | w = 1/[σ2(Fo2) + (0.0294P)2 + 0.2035P] where P = (Fo2 + 2Fc2)/3 |
2615 reflections | (Δ/σ)max < 0.001 |
142 parameters | Δρmax = 0.40 e Å−3 |
0 restraints | Δρmin = −0.36 e Å−3 |
[Ni(C8H8NO3S)2(H2O)4] | γ = 84.929 (2)° |
Mr = 527.20 | V = 534.98 (10) Å3 |
Triclinic, P1 | Z = 1 |
a = 4.8155 (5) Å | Mo Kα radiation |
b = 8.765 (1) Å | µ = 1.16 mm−1 |
c = 12.9560 (15) Å | T = 173 K |
α = 86.400 (2)° | 0.35 × 0.28 × 0.07 mm |
β = 79.501 (2)° |
Bruker SMART APEXII CCD diffractometer | 2615 independent reflections |
Absorption correction: multi-scan (SADABS; Sheldrick, 2008) | 2501 reflections with I > 2σ(I) |
Tmin = 0.405, Tmax = 0.492 | Rint = 0.017 |
9627 measured reflections |
R[F2 > 2σ(F2)] = 0.020 | 0 restraints |
wR(F2) = 0.055 | H-atom parameters constrained |
S = 1.05 | Δρmax = 0.40 e Å−3 |
2615 reflections | Δρmin = −0.36 e Å−3 |
142 parameters |
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. |
x | y | z | Uiso*/Ueq | ||
Ni1 | 0.5000 | 0.5000 | 0.5000 | 0.01405 (6) | |
N1 | 1.2267 (2) | 0.77325 (12) | −0.20598 (8) | 0.0197 (2) | |
C2 | 1.0696 (2) | 0.79224 (13) | −0.10776 (8) | 0.0167 (2) | |
C3 | 0.8347 (3) | 0.89789 (14) | −0.09608 (9) | 0.0212 (2) | |
H3 | 0.7229 | 0.9119 | −0.0285 | 0.025* | |
C4 | 0.7627 (3) | 0.98279 (15) | −0.18222 (10) | 0.0254 (3) | |
H4 | 0.6027 | 1.0555 | −0.1741 | 0.031* | |
C5 | 0.9266 (3) | 0.96061 (16) | −0.28069 (10) | 0.0291 (3) | |
H5 | 0.8794 | 1.0180 | −0.3406 | 0.035* | |
C6 | 1.1567 (3) | 0.85564 (16) | −0.29110 (10) | 0.0274 (3) | |
H6 | 1.2685 | 0.8403 | −0.3586 | 0.033* | |
O7 | 1.44740 (19) | 0.67209 (11) | −0.21521 (7) | 0.0264 (2) | |
S8 | 1.19805 (6) | 0.67388 (3) | −0.01121 (2) | 0.01821 (7) | |
C9 | 0.9142 (2) | 0.70873 (14) | 0.09994 (8) | 0.0176 (2) | |
H9A | 0.8880 | 0.8194 | 0.1136 | 0.021* | |
H9B | 0.7344 | 0.6765 | 0.0848 | 0.021* | |
C10 | 0.9942 (2) | 0.61698 (13) | 0.19529 (8) | 0.0177 (2) | |
H10A | 1.0268 | 0.5071 | 0.1796 | 0.021* | |
H10B | 1.1730 | 0.6511 | 0.2100 | 0.021* | |
C11 | 0.7643 (2) | 0.63642 (13) | 0.29187 (8) | 0.0159 (2) | |
O12 | 0.55540 (18) | 0.72858 (11) | 0.28796 (7) | 0.02341 (18) | |
O13 | 0.80467 (17) | 0.55410 (10) | 0.37393 (6) | 0.01937 (17) | |
O14 | 0.26378 (17) | 0.70791 (10) | 0.47964 (6) | 0.01973 (17) | |
H14A | 0.3264 | 0.7271 | 0.4179 | 0.030* | |
H14B | 0.0952 | 0.7007 | 0.4849 | 0.030* | |
O15 | 0.71999 (16) | 0.60521 (10) | 0.59458 (6) | 0.01836 (17) | |
H15A | 0.6207 | 0.6252 | 0.6514 | 0.028* | |
H15B | 0.8596 | 0.5522 | 0.6092 | 0.028* |
U11 | U22 | U33 | U12 | U13 | U23 | |
Ni1 | 0.01095 (10) | 0.01935 (11) | 0.01075 (10) | 0.00213 (7) | −0.00158 (7) | 0.00208 (7) |
N1 | 0.0229 (5) | 0.0205 (5) | 0.0145 (4) | −0.0001 (4) | −0.0011 (4) | −0.0011 (4) |
C2 | 0.0191 (5) | 0.0181 (5) | 0.0127 (5) | −0.0037 (4) | −0.0019 (4) | −0.0001 (4) |
C3 | 0.0223 (5) | 0.0220 (6) | 0.0178 (5) | 0.0001 (4) | −0.0012 (4) | 0.0002 (4) |
C4 | 0.0277 (6) | 0.0222 (6) | 0.0259 (6) | 0.0029 (5) | −0.0068 (5) | 0.0018 (5) |
C5 | 0.0399 (7) | 0.0273 (6) | 0.0199 (6) | 0.0009 (5) | −0.0090 (5) | 0.0055 (5) |
C6 | 0.0377 (7) | 0.0291 (6) | 0.0135 (5) | 0.0006 (5) | −0.0017 (5) | 0.0019 (5) |
O7 | 0.0259 (4) | 0.0308 (5) | 0.0188 (4) | 0.0075 (4) | 0.0012 (3) | −0.0025 (3) |
S8 | 0.01735 (13) | 0.02289 (15) | 0.01281 (13) | 0.00103 (10) | −0.00070 (10) | 0.00202 (10) |
C9 | 0.0165 (5) | 0.0228 (5) | 0.0121 (5) | −0.0006 (4) | −0.0004 (4) | 0.0017 (4) |
C10 | 0.0159 (5) | 0.0229 (5) | 0.0131 (5) | −0.0003 (4) | −0.0016 (4) | 0.0021 (4) |
C11 | 0.0147 (5) | 0.0205 (5) | 0.0127 (5) | −0.0024 (4) | −0.0027 (4) | 0.0011 (4) |
O12 | 0.0214 (4) | 0.0286 (5) | 0.0168 (4) | 0.0067 (3) | −0.0004 (3) | 0.0053 (3) |
O13 | 0.0137 (4) | 0.0298 (4) | 0.0129 (4) | 0.0020 (3) | −0.0015 (3) | 0.0052 (3) |
O14 | 0.0164 (4) | 0.0241 (4) | 0.0169 (4) | 0.0030 (3) | −0.0013 (3) | 0.0019 (3) |
O15 | 0.0147 (4) | 0.0256 (4) | 0.0139 (4) | 0.0030 (3) | −0.0024 (3) | −0.0009 (3) |
Ni1—O13i | 2.0488 (8) | C5—H5 | 0.9500 |
Ni1—O13 | 2.0488 (8) | C6—H6 | 0.9500 |
Ni1—O15i | 2.0644 (8) | S8—C9 | 1.8165 (11) |
Ni1—O15 | 2.0644 (8) | C9—C10 | 1.5216 (15) |
Ni1—O14 | 2.0898 (8) | C9—H9A | 0.9900 |
Ni1—O14i | 2.0898 (8) | C9—H9B | 0.9900 |
N1—O7 | 1.3154 (13) | C10—C11 | 1.5195 (15) |
N1—C6 | 1.3579 (16) | C10—H10A | 0.9900 |
N1—C2 | 1.3687 (14) | C10—H10B | 0.9900 |
C2—C3 | 1.3889 (16) | C11—O12 | 1.2395 (14) |
C2—S8 | 1.7405 (11) | C11—O13 | 1.2818 (13) |
C3—C4 | 1.3823 (17) | O14—H14A | 0.8142 |
C3—H3 | 0.9500 | O14—H14B | 0.8100 |
C4—C5 | 1.3877 (19) | O15—H15A | 0.8216 |
C4—H4 | 0.9500 | O15—H15B | 0.8268 |
C5—C6 | 1.3685 (19) | ||
O13i—Ni1—O13 | 180.0 | C6—C5—H5 | 120.2 |
O13i—Ni1—O15i | 88.53 (3) | C4—C5—H5 | 120.2 |
O13—Ni1—O15i | 91.47 (3) | N1—C6—C5 | 120.67 (11) |
O13i—Ni1—O15 | 91.47 (3) | N1—C6—H6 | 119.7 |
O13—Ni1—O15 | 88.53 (3) | C5—C6—H6 | 119.7 |
O15i—Ni1—O15 | 180.0 | C2—S8—C9 | 100.23 (5) |
O13i—Ni1—O14 | 88.50 (3) | C10—C9—S8 | 108.10 (8) |
O13—Ni1—O14 | 91.50 (3) | C10—C9—H9A | 110.1 |
O15i—Ni1—O14 | 90.66 (3) | S8—C9—H9A | 110.1 |
O15—Ni1—O14 | 89.34 (3) | C10—C9—H9B | 110.1 |
O13i—Ni1—O14i | 91.50 (3) | S8—C9—H9B | 110.1 |
O13—Ni1—O14i | 88.50 (3) | H9A—C9—H9B | 108.4 |
O15i—Ni1—O14i | 89.34 (3) | C11—C10—C9 | 111.71 (9) |
O15—Ni1—O14i | 90.66 (3) | C11—C10—H10A | 109.3 |
O14—Ni1—O14i | 180.0 | C9—C10—H10A | 109.3 |
O7—N1—C6 | 121.11 (10) | C11—C10—H10B | 109.3 |
O7—N1—C2 | 117.75 (10) | C9—C10—H10B | 109.3 |
C6—N1—C2 | 121.15 (10) | H10A—C10—H10B | 107.9 |
N1—C2—C3 | 118.82 (10) | O12—C11—O13 | 124.27 (10) |
N1—C2—S8 | 112.99 (8) | O12—C11—C10 | 119.85 (10) |
C3—C2—S8 | 128.19 (9) | O13—C11—C10 | 115.87 (9) |
C4—C3—C2 | 120.43 (11) | C11—O13—Ni1 | 126.08 (7) |
C4—C3—H3 | 119.8 | Ni1—O14—H14A | 98.9 |
C2—C3—H3 | 119.8 | Ni1—O14—H14B | 114.4 |
C3—C4—C5 | 119.25 (12) | H14A—O14—H14B | 107.5 |
C3—C4—H4 | 120.4 | Ni1—O15—H15A | 111.7 |
C5—C4—H4 | 120.4 | Ni1—O15—H15B | 113.8 |
C6—C5—C4 | 119.69 (12) | H15A—O15—H15B | 105.3 |
O7—N1—C2—C3 | −179.71 (10) | N1—C2—S8—C9 | −171.71 (9) |
C6—N1—C2—C3 | 0.08 (17) | C3—C2—S8—C9 | 7.83 (12) |
O7—N1—C2—S8 | −0.12 (14) | C2—S8—C9—C10 | −178.14 (8) |
C6—N1—C2—S8 | 179.66 (10) | S8—C9—C10—C11 | −178.64 (8) |
N1—C2—C3—C4 | −0.39 (18) | C9—C10—C11—O12 | −5.56 (15) |
S8—C2—C3—C4 | −179.90 (10) | C9—C10—C11—O13 | 175.00 (10) |
C2—C3—C4—C5 | 0.4 (2) | O12—C11—O13—Ni1 | 20.56 (17) |
C3—C4—C5—C6 | −0.1 (2) | C10—C11—O13—Ni1 | −160.03 (7) |
O7—N1—C6—C5 | 179.99 (12) | O15—Ni1—O13—C11 | −120.55 (9) |
C2—N1—C6—C5 | 0.2 (2) | O14—Ni1—O13—C11 | −31.25 (10) |
C4—C5—C6—N1 | −0.2 (2) |
Symmetry code: (i) −x+1, −y+1, −z+1. |
D—H···A | D—H | H···A | D···A | D—H···A |
O14—H14A···O12 | 0.81 | 1.84 | 2.6248 (12) | 162 |
O14—H14B···O15ii | 0.81 | 2.27 | 2.9517 (12) | 142 |
O14—H14B···O13ii | 0.81 | 2.64 | 3.2316 (12) | 131 |
O15—H15A···O7iii | 0.82 | 1.83 | 2.6469 (12) | 172 |
O15—H15B···O13iv | 0.83 | 1.83 | 2.6570 (11) | 172 |
C4—H4···O12v | 0.95 | 2.48 | 3.2044 (17) | 133 |
C6—H6···O14vi | 0.95 | 2.46 | 3.2515 (16) | 140 |
C10—H10B···O12vii | 0.99 | 2.42 | 3.3910 (14) | 167 |
Symmetry codes: (ii) x−1, y, z; (iii) x−1, y, z+1; (iv) −x+2, −y+1, −z+1; (v) −x+1, −y+2, −z; (vi) x+1, y, z−1; (vii) x+1, y, z. |
Experimental details
Crystal data | |
Chemical formula | [Ni(C8H8NO3S)2(H2O)4] |
Mr | 527.20 |
Crystal system, space group | Triclinic, P1 |
Temperature (K) | 173 |
a, b, c (Å) | 4.8155 (5), 8.765 (1), 12.9560 (15) |
α, β, γ (°) | 86.400 (2), 79.501 (2), 84.929 (2) |
V (Å3) | 534.98 (10) |
Z | 1 |
Radiation type | Mo Kα |
µ (mm−1) | 1.16 |
Crystal size (mm) | 0.35 × 0.28 × 0.07 |
Data collection | |
Diffractometer | Bruker SMART APEXII CCD diffractometer |
Absorption correction | Multi-scan (SADABS; Sheldrick, 2008) |
Tmin, Tmax | 0.405, 0.492 |
No. of measured, independent and observed [I > 2σ(I)] reflections | 9627, 2615, 2501 |
Rint | 0.017 |
(sin θ/λ)max (Å−1) | 0.664 |
Refinement | |
R[F2 > 2σ(F2)], wR(F2), S | 0.020, 0.055, 1.05 |
No. of reflections | 2615 |
No. of parameters | 142 |
H-atom treatment | H-atom parameters constrained |
Δρmax, Δρmin (e Å−3) | 0.40, −0.36 |
Computer programs: APEX2 (Bruker, 2008), SHELXS97 (Sheldrick, 2008), SHELXL97 (Sheldrick, 2008), SHELXTL (Sheldrick, 2008) and PLATON (Spek, 2009).
D—H···A | D—H | H···A | D···A | D—H···A |
O14—H14A···O12 | 0.81 | 1.84 | 2.6248 (12) | 162 |
O14—H14B···O15i | 0.81 | 2.27 | 2.9517 (12) | 142 |
O14—H14B···O13i | 0.81 | 2.64 | 3.2316 (12) | 131 |
O15—H15A···O7ii | 0.82 | 1.83 | 2.6469 (12) | 172 |
O15—H15B···O13iii | 0.83 | 1.83 | 2.6570 (11) | 172 |
C4—H4···O12iv | 0.95 | 2.48 | 3.2044 (17) | 133 |
C6—H6···O14v | 0.95 | 2.46 | 3.2515 (16) | 140 |
C10—H10B···O12vi | 0.99 | 2.42 | 3.3910 (14) | 167 |
Symmetry codes: (i) x−1, y, z; (ii) x−1, y, z+1; (iii) −x+2, −y+1, −z+1; (iv) −x+1, −y+2, −z; (v) x+1, y, z−1; (vi) x+1, y, z. |
References
Bovin, D. H. R., Crepon, E. & Zard, S. Z. (1992). Bull. Soc. Chim. Fr. 129, 145–150. Google Scholar
Bruker (2008). APEX2. Bruker AXS Inc., Madison, Wisconsin, USA. Google Scholar
Jebas, S. R., Balasubramanian, T., Ravidurai, B. & Kumaresan, S. (2005). Acta Cryst. E61, o2677–o2678. Web of Science CSD CrossRef IUCr Journals Google Scholar
Katsuyuki, N., Carter, B. J., Xu, J. & Hetch, S. M. (1991). J. Am. Chem. Soc. 113, 5099–5100. Google Scholar
Leonard, F., Barklay, F. A., Brown, E. V., Anderson, F. E. & Green, D. M. (1955). Antibiot. Chemother. pp. 261–264. Google Scholar
Lobana, T. S. & Bhatia, P. K. (1989). J. Sci. Ind. Res. 48, 394–401. CAS Google Scholar
Ravindran Durai Nayagam, B., Jebas, S. R., Grace, S. & Schollmeyer, D. (2008). Acta Cryst. E64, o409. Web of Science CSD CrossRef IUCr Journals Google Scholar
Sheldrick, G. M. (2008). Acta Cryst. A64, 112–122. Web of Science CrossRef CAS IUCr Journals Google Scholar
Spek, A. L. (2009). Acta Cryst. D65, 148–155. Web of Science CrossRef CAS IUCr Journals Google Scholar
Symons, M. C. R. & West, D.-X. (1985). J. Chem. Soc. Dalton Trans. pp. 379–381. CrossRef Web of Science Google Scholar
This is an open-access article distributed under the terms of the Creative Commons Attribution (CC-BY) Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original authors and source are cited.
N-oxides and their derivatives show a broad spectrum of biological activity such as antifungal, antimicrobial and antibacterial activities (Lobana & Bhatia, 1989; Symons & West, 1985). These compounds are also found to be involved in DNA strand scission under physiological conditions (Katsuyuki et al., 1991; Bovin et al., 1992). Pyridine N–oxides bearing a sulfur group in position two display significant antimicrobial activity (Leonard et al., 1955). In view of the importance of N–oxides, we have previously reported the crystal structures of N–oxide derivatives (Jebas et al., 2005; Ravindran et al., 2008). As an extension of our work on N–oxide derivatives, we report here the crystal structure of the title compound.
The asymmetric unit comprises of half molecule of the title compound, the other half is symmetry generated [symmetry code: -x + 1,-y + 1,-z + 1]. The NiII ion which lies on an inversion centre is six coordinated by four water molecules and two propianoto oxygen atoms from two 2-pyridylsulfanylpropionato N-oxide ligands forming a slightly distorted octahedral geometry. The bond lengths and angles agree well with the N–oxide derivatives reported earlier (Jebas et al., 2005)
Intramolecular O—H···O hydrogen bonding influences the conformation of the molecule. The crystal packing (Fig. 2) is consolidated by intermolecular O—H···O and C—H···O hydrogen bonding together with intramolecular S···O = 2.6968 (10) Å; O···O = 2.6248 (12) Å, intermolecular O···Oi = 2.6469 (12) Å; O···Oii = 2.6570 (12) Å and O···Oiii = 2.9455 (12) Å [symmetry code: (i):1 + x,y,-1 + z; (ii) 2 - x,1 - y,1 - z; (iii) 1 - x,1 - y,1 - z] short contacts. The molecules are stacked along the a axis.