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Acta Crystallographica Section E: Structure Reports Online logoLink to Acta Crystallographica Section E: Structure Reports Online
. 2011 Jun 4;67(Pt 7):m829. doi: 10.1107/S1600536811019945

{N-Methyl-N′-[1-(pyridin-2-yl)ethyl­idene]ethane-1,2-diamine-κ3 N,N′,N′′}­bis(thio­cyanato-κN)zinc(II)

Xian-Wen Li a,*
PMCID: PMC3151752  PMID: 21836839

Abstract

In the title compound, [Zn(NCS)2(C10H15N3)], the Zn atom is five-coordinated by the three N-donor atoms of the Schiff base ligand and by two N atoms from two thio­cyanate anions, forming a distorted ZnN5 trigonal–bipyramidal coordination geometry for the metal ion. The side chain of the ligand is disordered over two sets of sites in a 0.655 (12):0.345 (12) ratio. In the crystal, mol­ecules are linked by N—H⋯S hydrogen bonds, generating [100] chains.

Related literature

For the biological activity of Schiff base compounds, see: Panneerselvam et al. (2005); Shi et al. (2007); Singh et al. (2006, 2007); Zhong et al. (2006). For the Schiff base complexes we reported previously, see: Li & Qiu (2008a ,b ).graphic file with name e-67-0m829-scheme1.jpg

Experimental

Crystal data

  • [Zn(NCS)2(C10H15N3)]

  • M r = 358.78

  • Monoclinic, Inline graphic

  • a = 7.6674 (3) Å

  • b = 14.8062 (5) Å

  • c = 14.3766 (6) Å

  • β = 101.853 (2)°

  • V = 1597.30 (11) Å3

  • Z = 4

  • Mo Kα radiation

  • μ = 1.80 mm−1

  • T = 298 K

  • 0.20 × 0.20 × 0.18 mm

Data collection

  • Bruker APEXII CCD diffractometer

  • Absorption correction: multi-scan (SADABS; Sheldrick, 2004) T min = 0.715, T max = 0.738

  • 9004 measured reflections

  • 3352 independent reflections

  • 2095 reflections with I > 2σ(I)

  • R int = 0.029

Refinement

  • R[F 2 > 2σ(F 2)] = 0.040

  • wR(F 2) = 0.105

  • S = 1.02

  • 3352 reflections

  • 201 parameters

  • 12 restraints

  • H-atom parameters constrained

  • Δρmax = 0.46 e Å−3

  • Δρmin = −0.46 e Å−3

Data collection: APEX2 (Bruker, 2004); cell refinement: SAINT (Bruker, 2004); 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: SHELXTL.

Supplementary Material

Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536811019945/hb5892sup1.cif

e-67-0m829-sup1.cif (17.4KB, cif)

Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811019945/hb5892Isup2.hkl

e-67-0m829-Isup2.hkl (164.4KB, hkl)

Additional supplementary materials: crystallographic information; 3D view; checkCIF report

Table 1. Selected bond lengths (Å).

Zn1—N5 1.974 (4)
Zn1—N4 1.986 (4)
Zn1—N2 2.088 (3)
Zn1—N3 2.163 (4)
Zn1—N1 2.195 (3)

Table 2. Hydrogen-bond geometry (Å, °).

D—H⋯A D—H H⋯A DA D—H⋯A
N3—H3A⋯S1i 0.91 2.66 3.551 (5) 165

Symmetry code: (i) Inline graphic.

Acknowledgments

We thank Minjiang University for financial support.

supplementary crystallographic information

Comment

Schiff base compounds have been reported to have excellent biological activity (Shi et al., 2007; Panneerselvam et al., 2005). The metal complexes derived from the Schiff bases also have excellent biological activity (Singh et al., 2006, 2007; Zhong et al., 2006). As a continuation of our work on Schiff base complexes (Li & Qiu, 2008a,b), we report herein the crystal structure of the title zinc complex, (I).

In the title mononuclear zinc(II) complex, the Zn atom is five-coordinated by the three donor atoms (N1, N2, and N3) of the Schiff baes ligand, and two N atoms from two thiocyanate ligands, forming a slightly distorted trigonal-bipyramidal geometry (Fig. 1). The coordinate bond values (Table 1) are within normal ranges.

Experimental

The title compound was obtained by the reaction of equimolar quantities (0.1 mmol each) of 2-acetylpyridine, N-methylethane-1,2-diamine, sodium thiocyanate, and zinc acetate in ethanol. Colorless blocks of (I) were obtained by the slow evaporation of the filtrate in air.

Refinement

H atoms were positioned geometrically and refined using a riding model, with C—H = 0.93–0.97Å and with Uiso(H) = 1.2 (1.5 for methyl groups) times Ueq(C).

The amino H atoms were located in a difference map and refined with N—H distance restrained to 0.90 (1) Å. The remaining H atoms were positioned geometrically (C—H = 0.93–0.97 Å, N—H = 0.91 Å) and refined using a riding model, with Uiso(H) = 1.2Ueq(C) and 1.5Ueq(methyl C). The C9—N3—C10 moiety is disordered over two sites, with occupancies of 0.655 (3) and 0.345 (3).

Figures

Fig. 1.

Fig. 1.

The molecular structure of the title compound, showing 30% probability displacement ellipsoids. Only the major component of the disordered group is shown.

Crystal data

[Zn(NCS)2(C10H15N3)] F(000) = 736
Mr = 358.78 Dx = 1.492 Mg m3
Monoclinic, P21/n Mo Kα radiation, λ = 0.71073 Å
Hall symbol: -P 2yn Cell parameters from 2372 reflections
a = 7.6674 (3) Å θ = 2.6–25.1°
b = 14.8062 (5) Å µ = 1.80 mm1
c = 14.3766 (6) Å T = 298 K
β = 101.853 (2)° Block, colorless
V = 1597.30 (11) Å3 0.20 × 0.20 × 0.18 mm
Z = 4

Data collection

Bruker APEXII CCD diffractometer 3352 independent reflections
Radiation source: fine-focus sealed tube 2095 reflections with I > 2σ(I)
graphite Rint = 0.029
ω scans θmax = 26.7°, θmin = 2.0°
Absorption correction: multi-scan (SADABS; Sheldrick, 2004) h = −9→9
Tmin = 0.715, Tmax = 0.738 k = −17→18
9004 measured reflections l = −18→11

Refinement

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)] = 0.040 Hydrogen site location: inferred from neighbouring sites
wR(F2) = 0.105 H-atom parameters constrained
S = 1.02 w = 1/[σ2(Fo2) + (0.0323P)2 + 1.952P] where P = (Fo2 + 2Fc2)/3
3352 reflections (Δ/σ)max = 0.001
201 parameters Δρmax = 0.46 e Å3
12 restraints Δρmin = −0.46 e Å3

Special details

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.

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

x y z Uiso*/Ueq Occ. (<1)
Zn1 0.72087 (6) −0.07353 (3) 0.71636 (3) 0.05504 (17)
S1 1.28221 (17) −0.15205 (10) 0.89256 (10) 0.0835 (4)
S2 0.3366 (2) −0.32564 (11) 0.66375 (10) 0.1063 (6)
N1 0.7424 (4) −0.0555 (2) 0.5676 (2) 0.0524 (8)
N2 0.6777 (4) 0.0641 (2) 0.6890 (2) 0.0559 (8)
N4 0.9697 (5) −0.1140 (3) 0.7651 (3) 0.0760 (11)
N5 0.5583 (5) −0.1782 (2) 0.6923 (2) 0.0684 (10)
C1 0.7390 (5) 0.0309 (3) 0.5392 (3) 0.0515 (9)
C2 0.7683 (5) 0.0539 (3) 0.4504 (3) 0.0628 (11)
H2 0.7670 0.1142 0.4319 0.075*
C3 0.7993 (6) −0.0131 (4) 0.3901 (3) 0.0708 (13)
H3 0.8193 0.0015 0.3303 0.085*
C4 0.8009 (6) −0.1007 (4) 0.4174 (3) 0.0706 (13)
H4 0.8207 −0.1469 0.3770 0.085*
C5 0.7719 (6) −0.1192 (3) 0.5074 (3) 0.0629 (11)
H5 0.7731 −0.1792 0.5268 0.075*
C6 0.7014 (5) 0.0970 (3) 0.6107 (3) 0.0577 (10)
C7 0.6971 (7) 0.1958 (3) 0.5876 (4) 0.0877 (15)
H7A 0.6442 0.2284 0.6325 0.132*
H7B 0.6279 0.2052 0.5247 0.132*
H7C 0.8164 0.2172 0.5907 0.132*
C11 1.1008 (6) −0.1300 (3) 0.8180 (3) 0.0573 (10)
C12 0.4653 (6) −0.2395 (3) 0.6815 (3) 0.0586 (10)
C8 0.6362 (7) 0.1164 (3) 0.7662 (3) 0.0810 (14) 0.655 (12)
H8A 0.5502 0.1631 0.7417 0.097* 0.655 (12)
H8B 0.7431 0.1451 0.8016 0.097* 0.655 (12)
C9 0.5577 (12) 0.0508 (5) 0.8318 (5) 0.074 (3) 0.655 (12)
H9A 0.5582 0.0803 0.8921 0.089* 0.655 (12)
H9B 0.4349 0.0371 0.8026 0.089* 0.655 (12)
C10 0.7978 (14) −0.0366 (8) 0.9293 (6) 0.089 (3) 0.655 (12)
H10A 0.7586 −0.0160 0.9849 0.133* 0.655 (12)
H10B 0.8964 −0.0004 0.9196 0.133* 0.655 (12)
H10C 0.8346 −0.0986 0.9377 0.133* 0.655 (12)
N3 0.6540 (6) −0.0290 (3) 0.8480 (2) 0.0814 (12) 0.655 (12)
H3A 0.5729 −0.0703 0.8591 0.098* 0.655 (12)
C8' 0.6362 (7) 0.1164 (3) 0.7662 (3) 0.0810 (14) 0.345 (12)
H8'A 0.5082 0.1233 0.7582 0.097* 0.345 (12)
H8'B 0.6893 0.1760 0.7673 0.097* 0.345 (12)
C9' 0.709 (2) 0.0678 (7) 0.8562 (7) 0.097 (7) 0.345 (12)
H9'A 0.6658 0.0959 0.9081 0.116* 0.345 (12)
H9'B 0.8382 0.0719 0.8702 0.116* 0.345 (12)
C10' 0.723 (2) −0.0647 (13) 0.9393 (8) 0.066 (5) 0.345 (12)
H10D 0.6699 −0.0338 0.9854 0.099* 0.345 (12)
H10E 0.8497 −0.0565 0.9546 0.099* 0.345 (12)
H10F 0.6955 −0.1279 0.9400 0.099* 0.345 (12)
N3' 0.6540 (6) −0.0290 (3) 0.8480 (2) 0.0814 (12) 0.345 (12)
H3'A 0.5331 −0.0302 0.8394 0.098* 0.345 (12)

Atomic displacement parameters (Å2)

U11 U22 U33 U12 U13 U23
Zn1 0.0644 (3) 0.0492 (3) 0.0518 (3) 0.0000 (2) 0.0128 (2) 0.0037 (2)
S1 0.0678 (8) 0.0948 (10) 0.0845 (9) 0.0061 (7) 0.0077 (6) −0.0070 (7)
S2 0.1434 (14) 0.0975 (11) 0.0869 (9) −0.0621 (10) 0.0447 (9) −0.0190 (8)
N1 0.062 (2) 0.0456 (19) 0.0502 (18) −0.0062 (15) 0.0126 (15) −0.0006 (15)
N2 0.061 (2) 0.0461 (18) 0.061 (2) 0.0029 (16) 0.0128 (16) −0.0033 (16)
N4 0.074 (3) 0.082 (3) 0.073 (3) 0.008 (2) 0.018 (2) 0.021 (2)
N5 0.082 (3) 0.055 (2) 0.069 (2) −0.007 (2) 0.017 (2) 0.0074 (18)
C1 0.042 (2) 0.057 (2) 0.053 (2) −0.0039 (18) 0.0023 (17) 0.0080 (19)
C2 0.055 (3) 0.071 (3) 0.059 (3) −0.008 (2) 0.003 (2) 0.020 (2)
C3 0.064 (3) 0.100 (4) 0.048 (2) −0.015 (3) 0.010 (2) 0.009 (3)
C4 0.068 (3) 0.092 (4) 0.054 (3) −0.010 (3) 0.018 (2) −0.012 (2)
C5 0.072 (3) 0.056 (3) 0.064 (3) −0.005 (2) 0.022 (2) −0.002 (2)
C6 0.054 (2) 0.044 (2) 0.070 (3) −0.0030 (18) 0.002 (2) 0.004 (2)
C7 0.114 (4) 0.048 (3) 0.099 (4) −0.001 (3) 0.015 (3) 0.008 (3)
C11 0.065 (3) 0.051 (2) 0.060 (3) −0.005 (2) 0.024 (2) 0.003 (2)
C12 0.075 (3) 0.059 (3) 0.045 (2) −0.002 (2) 0.022 (2) 0.007 (2)
C8 0.097 (4) 0.060 (3) 0.089 (4) −0.004 (3) 0.025 (3) −0.019 (3)
C9 0.081 (6) 0.080 (6) 0.062 (4) 0.033 (4) 0.018 (4) −0.005 (4)
C10 0.111 (7) 0.092 (7) 0.059 (5) 0.030 (5) 0.010 (5) −0.003 (4)
N3 0.092 (3) 0.097 (3) 0.057 (2) −0.012 (3) 0.020 (2) −0.009 (2)
C8' 0.097 (4) 0.060 (3) 0.089 (4) −0.004 (3) 0.025 (3) −0.019 (3)
C9' 0.096 (14) 0.151 (18) 0.044 (8) −0.025 (12) 0.015 (8) −0.013 (9)
C10' 0.090 (12) 0.066 (10) 0.046 (7) 0.005 (9) 0.025 (8) 0.016 (7)
N3' 0.092 (3) 0.097 (3) 0.057 (2) −0.012 (3) 0.020 (2) −0.009 (2)

Geometric parameters (Å, °)

Zn1—N5 1.974 (4) C5—H5 0.9300
Zn1—N4 1.986 (4) C6—C7 1.499 (6)
Zn1—N2 2.088 (3) C7—H7A 0.9600
Zn1—N3 2.163 (4) C7—H7B 0.9600
Zn1—N1 2.195 (3) C7—H7C 0.9600
S1—C11 1.605 (5) C8—C9 1.559 (7)
S2—C12 1.601 (5) C8—H8A 0.9700
N1—C5 1.330 (5) C8—H8B 0.9700
N1—C1 1.342 (5) C9—N3 1.388 (6)
N2—C6 1.273 (5) C9—H9A 0.9700
N2—C8 1.441 (5) C9—H9B 0.9700
N4—C11 1.154 (5) C10—N3 1.437 (7)
N5—C12 1.145 (5) C10—H10A 0.9600
C1—C2 1.383 (5) C10—H10B 0.9600
C1—C6 1.490 (6) C10—H10C 0.9600
C2—C3 1.371 (6) N3—H3A 0.9100
C2—H2 0.9300 C9'—H9'A 0.9700
C3—C4 1.354 (6) C9'—H9'B 0.9700
C3—H3 0.9300 C10'—H10D 0.9600
C4—C5 1.385 (6) C10'—H10E 0.9600
C4—H4 0.9300 C10'—H10F 0.9600
N5—Zn1—N4 110.56 (16) C6—C7—H7A 109.5
N5—Zn1—N2 131.51 (14) C6—C7—H7B 109.5
N4—Zn1—N2 117.70 (15) H7A—C7—H7B 109.5
N5—Zn1—N3 97.92 (16) C6—C7—H7C 109.5
N4—Zn1—N3 99.59 (16) H7A—C7—H7C 109.5
N2—Zn1—N3 79.09 (15) H7B—C7—H7C 109.5
N5—Zn1—N1 95.51 (13) N4—C11—S1 179.4 (4)
N4—Zn1—N1 96.97 (14) N5—C12—S2 178.5 (4)
N2—Zn1—N1 74.85 (12) N2—C8—C9 107.8 (4)
N3—Zn1—N1 153.44 (15) N2—C8—H8A 110.2
C5—N1—C1 118.3 (3) C9—C8—H8A 110.2
C5—N1—Zn1 127.2 (3) N2—C8—H8B 110.2
C1—N1—Zn1 114.3 (3) C9—C8—H8B 110.2
C6—N2—C8 124.6 (4) H8A—C8—H8B 108.5
C6—N2—Zn1 119.6 (3) N3—C9—C8 111.9 (5)
C8—N2—Zn1 115.5 (3) N3—C9—H9A 109.2
C11—N4—Zn1 159.8 (4) C8—C9—H9A 109.2
C12—N5—Zn1 177.7 (4) N3—C9—H9B 109.2
N1—C1—C2 121.3 (4) C8—C9—H9B 109.2
N1—C1—C6 114.3 (3) H9A—C9—H9B 107.9
C2—C1—C6 124.4 (4) N3—C10—H10A 109.5
C3—C2—C1 119.2 (4) N3—C10—H10B 109.5
C3—C2—H2 120.4 H10A—C10—H10B 109.5
C1—C2—H2 120.4 N3—C10—H10C 109.5
C4—C3—C2 120.2 (4) H10A—C10—H10C 109.5
C4—C3—H3 119.9 H10B—C10—H10C 109.5
C2—C3—H3 119.9 C9—N3—C10 119.7 (7)
C3—C4—C5 117.8 (4) C9—N3—Zn1 109.1 (3)
C3—C4—H4 121.1 C10—N3—Zn1 114.1 (5)
C5—C4—H4 121.1 C9—N3—H3A 104.0
N1—C5—C4 123.3 (4) C10—N3—H3A 104.0
N1—C5—H5 118.4 Zn1—N3—H3A 104.0
C4—C5—H5 118.4 H9'A—C9'—H9'B 108.1
N2—C6—C1 116.2 (3) H10D—C10'—H10E 109.5
N2—C6—C7 124.7 (4) H10D—C10'—H10F 109.5
C1—C6—C7 119.1 (4) H10E—C10'—H10F 109.5

Hydrogen-bond geometry (Å, °)

D—H···A D—H H···A D···A D—H···A
N3—H3A···S1i 0.91 2.66 3.551 (5) 165

Symmetry codes: (i) x−1, y, z.

Footnotes

Supplementary data and figures for this paper are available from the IUCr electronic archives (Reference: HB5892).

References

  1. Bruker (2004). APEX2 and SAINT Bruker AXS Inc., Madison, Wisconsin, USA.
  2. Li, X.-W. & Qiu, Y. (2008a). Acta Cryst. E64, m113. [DOI] [PMC free article] [PubMed]
  3. Li, X.-W. & Qiu, Y. (2008b). Acta Cryst. E64, m218. [DOI] [PMC free article] [PubMed]
  4. Panneerselvam, P., Nair, R. R., Vijayalakshmi, G., Subramanian, E. H. & Krishnan, S. (2005). Eur. J. Med. Chem. 40, 225–229. [DOI] [PubMed]
  5. Sheldrick, G. M. (2004). SADABS University of Göttingen, Germany.
  6. Sheldrick, G. M. (2008). Acta Cryst. A64, 112–122. [DOI] [PubMed]
  7. Shi, L., Ge, H.-M., Tan, S.-H., Li, H.-Q., Song, Y.-C., Zhu, H.-L. & Tan, R.-X. (2007). Eur. J. Med. Chem. 42, 558–564. [DOI] [PubMed]
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Associated Data

This section collects any data citations, data availability statements, or supplementary materials included in this article.

Supplementary Materials

Crystal structure: contains datablock(s) global, I. DOI: 10.1107/S1600536811019945/hb5892sup1.cif

e-67-0m829-sup1.cif (17.4KB, cif)

Structure factors: contains datablock(s) I. DOI: 10.1107/S1600536811019945/hb5892Isup2.hkl

e-67-0m829-Isup2.hkl (164.4KB, hkl)

Additional supplementary materials: crystallographic information; 3D view; checkCIF report


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